UniformLayerAuxKernel

Computes an AuxVariable for representing a layered structure in an arbitrary direction.

Description

The UniformLayerAuxKernel is designed to create an arbitrary number of planar layers to be used as layer identifiers. The layers created can be oriented in any direction.

For example, the following input file syntax will create the AuxVariable field shown in Figure 1.

[AuxKernels<<<{"href": "../../syntax/AuxKernels/index.html"}>>>]
  [./layers]
    type = UniformLayerAuxKernel<<<{"description": "Computes an AuxVariable for representing a layered structure in an arbitrary direction.", "href": "UniformLayerAuxKernel.html"}>>>
    variable<<<{"description": "The name of the variable that this object applies to"}>>> = layer_id
    interfaces<<<{"description": "A list of layer interface locations to apply across the domain in the specified direction."}>>> = '20 40 78 1000'
    layer_ids<<<{"description": "A list of layer identifiers to assign to each interface. If not provided integer values starting from 0 are utilized, if provided the length of this vector must be identical to the 'intefaces' vector."}>>> = '6 24 19 80'
    direction<<<{"description": "The direction to apply layering."}>>> = '1 2 3'
    execute_on<<<{"description": "The list of flag(s) indicating when this object should be executed. For a description of each flag, see https://mooseframework.inl.gov/source/interfaces/SetupInterface.html."}>>> = initial
  [../]
[]

The "interfaces" parameters is a list of layer interface locations in the direction of the "direction" vector parameter. Optionally, the "ids" of each of the layers that will be created may be provided in the "layer_ids" parameter, if this list is omitted then the "ids" are assigned in ascending order beginning at 0.

Figure 1: Example of oriented "layers" in 3D.

Input Parameters

interfacesA list of layer interface locations to apply across the domain in the specified direction.
C++ Type:std::vector<double>
Unit:(no unit assumed)
Controllable:No
Description:A list of layer interface locations to apply across the domain in the specified direction.
variableThe name of the variable that this object applies to
C++ Type:AuxVariableName
Unit:(no unit assumed)
Controllable:No
Description:The name of the variable that this object applies to

Required Parameters

blockThe list of blocks (ids or names) that this object will be applied
C++ Type:std::vector<SubdomainName>
Controllable:No
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 object applies
C++ Type:std::vector<BoundaryName>
Controllable:No
Description:The list of boundaries (ids or names) from the mesh where this object applies
check_boundary_restrictedTrueWhether to check for multiple element sides on the boundary in the case of a boundary restricted, element aux variable. Setting this to false will allow contribution to a single element's elemental value(s) from multiple boundary sides on the same element (example: when the restricted boundary exists on two or more sides of an element, such as at a corner of a mesh
Default:True
C++ Type:bool
Controllable:No
Description:Whether to check for multiple element sides on the boundary in the case of a boundary restricted, element aux variable. Setting this to false will allow contribution to a single element's elemental value(s) from multiple boundary sides on the same element (example: when the restricted boundary exists on two or more sides of an element, such as at a corner of a mesh
direction1 0 0The direction to apply layering.
Default:1 0 0
C++ Type:libMesh::VectorValue<double>
Unit:(no unit assumed)
Controllable:No
Description:The direction to apply layering.
execute_onLINEAR TIMESTEP_ENDThe list of flag(s) indicating when this object should be executed. For a description of each flag, see https://mooseframework.inl.gov/source/interfaces/SetupInterface.html.
Default:LINEAR TIMESTEP_END
C++ Type:ExecFlagEnum
Options:XFEM_MARK, NONE, INITIAL, LINEAR, LINEAR_CONVERGENCE, NONLINEAR, NONLINEAR_CONVERGENCE, POSTCHECK, TIMESTEP_END, TIMESTEP_BEGIN, MULTIAPP_FIXED_POINT_END, MULTIAPP_FIXED_POINT_BEGIN, MULTIAPP_FIXED_POINT_CONVERGENCE, FINAL, CUSTOM, PRE_DISPLACE
Controllable:No
Description:The list of flag(s) indicating when this object should be executed. For a description of each flag, see https://mooseframework.inl.gov/source/interfaces/SetupInterface.html.
layer_idsA list of layer identifiers to assign to each interface. If not provided integer values starting from 0 are utilized, if provided the length of this vector must be identical to the 'intefaces' vector.
C++ Type:std::vector<unsigned int>
Controllable:No
Description:A list of layer identifiers to assign to each interface. If not provided integer values starting from 0 are utilized, if provided the length of this vector must be identical to the 'intefaces' vector.

Optional Parameters

control_tagsAdds user-defined labels for accessing object parameters via control logic.
C++ Type:std::vector<std::string>
Controllable:No
Description:Adds user-defined labels for accessing object parameters via control logic.
enableTrueSet the enabled status of the MooseObject.
Default:True
C++ Type:bool
Controllable:Yes
Description:Set the enabled status of the MooseObject.
seed0The seed for the master random number generator
Default:0
C++ Type:unsigned int
Controllable:No
Description:The seed for the master random number generator
use_displaced_meshFalseWhether or not this object should use the displaced mesh for computation. Note that in the case this is true but no displacements are provided in the Mesh block the undisplaced mesh will still be used.
Default:False
C++ Type:bool
Controllable:No
Description:Whether or not this object should use the displaced mesh for computation. Note that in the case this is true but no displacements are provided in the Mesh block the undisplaced mesh will still be used.

Advanced Parameters

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
Unit:(no unit assumed)
Controllable:No
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.
use_interpolated_stateFalseFor the old and older state use projected material properties interpolated at the quadrature points. To set up projection use the ProjectedStatefulMaterialStorageAction.
Default:False
C++ Type:bool
Controllable:No
Description:For the old and older state use projected material properties interpolated at the quadrature points. To set up projection use the ProjectedStatefulMaterialStorageAction.

Material Property Retrieval Parameters

Input Files

(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency_noaction_AD.i)
(test/tests/mastodonblock/model/noaction_dynamic_2D.i)
(test/tests/mastodonblock/combined/noaction.i)
(examples/ex07/small_model.i)
(test/tests/auxkernels/uniform_layer/uniform_layer_1d.i)
(test/tests/materials/isoil/HYS_thin_layer.i)
(test/tests/materials/isoil/HYS_GQH.i)
(test/tests/materials/isoil/HYS_darendeli_verification.i)
(tutorial/site_response_1.i)
(test/tests/materials/isoil/HYS_data_file_pressure_contact.i)
(test/tests/materials/isoil/HYS_GQH_twolayers.i)
(test/tests/materials/isoil/HYS_GQH_noaction.i)
(test/tests/materials/isoil/HYS_data_file_AD_jac.i)
(test/tests/auxkernels/uniform_layer/uniform_layer.i)
(test/tests/auxkernels/uniform_layer/uniform_layer_2d.i)
(test/tests/materials/isoil/HYS_darendeli_AD.i)
(examples/ex09/SSI_Response.i)
(test/tests/mastodonblock/model/noaction_dynamic.i)
(test/tests/materials/isoil/HYS_GQH_noaction_AD.i)
(examples/ex01a/HYS_darendeli.i)
(test/tests/materials/isoil/HYS_data_file.i)
(examples/ex03a/shear_beam_Isoil_free_field.i)
(test/tests/materials/isoil/HYS_darendeli.i)
(test/tests/materials/isoil/HYS_darendeli_noaction_AD.i)
(test/tests/auxkernels/uniform_layer/uniform_layer_3d.i)
(examples/ex02b/HYS_GQH_Explicit.i)
(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency_AD.i)
(examples/ex03a/shear_beam_Isoil_free_field_AD.i)
(examples/ex02a/HYS_GQH.i)
(test/tests/mastodonblock/outputs/noaction_stress_strain_output.i)
(examples/ex07/fixed_inner.i)
(examples/ex09/Soil_Response.i)
(test/tests/auxkernels/uniform_layer/uniform_layer_3d_default_layers.i)
(test/tests/vectorpostprocessors/response_spectra_calculator/response_spectra_calculator.i)
(test/tests/materials/isoil/HYS_thin_layer_noaction.i)
(test/tests/materials/isoil/HYS_data_file_pressure_contact_AD.i)
(test/tests/auxkernels/uniform_layer/uniform_layer_2d_nodal.i)
(test/tests/materials/isoil/HYS_darendeli_noaction.i)
(test/tests/mastodonblock/combined/mastodon_block_actions.i)
(examples/ex01b/HYS_darendeli_explicit.i)
(test/tests/materials/isoil/HYS_pressure_dependent_strength.i)
(examples/ex04/2BlockFriction_Isoilunit.i)
(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency_noaction.i)
(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency.i)
(examples/ex07/fixed_outer.i)
(test/tests/materials/isoil/HYS_data_file_verification.i)
(test/tests/mastodonblock/model/model_static.i)
(test/tests/mastodonblock/combined/mastodon_block_actions_2D.i)
(test/tests/mastodonblock/model/model_dynamic_2D.i)
(test/tests/pra/sub_sub.i)
(test/tests/materials/isoil/HYS_data_file_AD.i)
(examples/ex03b/shear_beam_Isoil_free_field_explicit.i)
(examples/ex07/big_model.i)
(test/tests/materials/isoil/HYS_pressure_dependent_stiffness.i)
(test/tests/materials/isoil/HYS_GQH_twolayers_noaction.i)
(test/tests/materials/isoil/HYS_data_file_noaction_AD.i)
(examples/ex13/site_response/sr_input.i)
(test/tests/materials/isoil/HYS_thin_layer_noaction_AD.i)
(test/tests/mastodonblock/combined/noaction_2D.i)
(test/tests/materials/isoil/HYS_GQH_verification.i)
(test/tests/bcs/seismic_force/seismic_force_test_z.i)
(test/tests/mastodonblock/outputs/stress_strain_output.i)
(test/tests/mastodonblock/model/noaction_static.i)
(test/tests/materials/isoil/HYS_data_file_noaction.i)
(test/tests/materials/isoil/HYS_GQH_AD.i)
(test/tests/materials/isoil/HYS_thin_layer_AD.i)
(test/tests/vectorpostprocessors/housner_spectrum_intensity/housner_spectrum_intensity.i)
(examples/ex06b/actual_simulation_isoil.i)
(test/tests/mastodonblock/model/model_dynamic.i)

(test/tests/auxkernels/uniform_layer/uniform_layer_3d.i)

#@requirement F3.3
#@requirement DI1.3
[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 20
  ny = 20
  nz = 20
  xmax = 100
  ymax = 100
  zmax = 100
[]

[AuxVariables]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '20 40 78 1000'
    layer_ids = '6 24 19 80'
    direction = '1 2 3'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency_noaction_AD.i)

# One element test to check pressure dependent stiffness and yield strength calcualtion.

# The element is first intialized with stresses corresponding to acceleration due to gravity (g).
# Then a body force equal to 3 * g is applied to the element thereby increasing the pressure experienced
# by the element. The element is then sheared by moving the front surface (z = 0) in the x direction.

# The resulting stress-strain curve is stiffer due to the increase in pressure and also the maximum/ultimate shear
# stress at which the material completely fails is also higher due to the yield strength pressure correction.

# This file DOESNOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -29.43
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = 'initial'
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain20.csv'
    poissons_ratio = '0.3'
    initial_soil_stress = '-12613 0 0  0 -12613 0  0 0 -29430'
    pressure_dependency = true
    b_exp = 0.5
    p_ref = 6072.86
    tension_pressure_cut_off = -1
    a0 = 0
    a1 = 0
    a2 = 1
  [../]
  [./sample_isoil_strain]
    type = ADComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '0'
    elastic_modulus = '1.0'
    poissons_ratio = '0.3'
    density = '2000'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 10
  dt = 0.05
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  [./out]
    type = Exodus
    hide = 'vel_x vel_y vel_z accel_x accel_y accel_z'
  [../]
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/model/noaction_dynamic_2D.i)

# One element 2D model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 2 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
[]

[Mastodon]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    block = 0
    displacements = 'disp_x disp_y'
    stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 1 0'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = bottom
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = bottom
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y'
      primary = left
      secondary = right
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_x
  [../]
  [./disp_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_y
  [../]
  [./vel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_x
  [../]
  [./vel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_y
  [../]
  [./accel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_x
  [../]
  [./accel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_y
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/combined/noaction.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex07/small_model.i)

[Mesh]
  [./generate]
    type = GeneratedMeshGenerator
    dim = 2
    xmin = 400.0
    xmax = 600.0
    ymin = 400.0
    ymax = 500.0
    nx = 20
    ny = 10
  [../]
  [./outer_1]
    type = ParsedAddSidesetGenerator
    input = generate
    combinatorial_geometry = 'x > 449.9 & x < 450.1 & y > 449.9'
    new_sideset_name = outer_1
    normal = '-1.0 0.0 0.0'
  [../]
  [./outer_2]
    type = ParsedAddSidesetGenerator
    input = outer_1
    combinatorial_geometry = 'x > 459.1 & x < 541.0 & y > 449.9 & y < 450.1'
    new_sideset_name = outer_2
    normal = '0.0 -1.0 0.0'
  [../]
  [./outer_3]
    type = ParsedAddSidesetGenerator
    input = outer_2
    combinatorial_geometry = 'x > 549.1 & x < 550.1 & y > 449.9'
    new_sideset_name = outer_3
    normal = '1.0 0.0 0.0'
  [../]
  [./inner_1]
    type = ParsedAddSidesetGenerator
    input = outer_3
    combinatorial_geometry = 'x > 459.9 & x < 460.1 & y > 459.9'
    new_sideset_name = inner_1
    normal = '1.0 0.0 0.0'
  [../]
  [./inner_2]
    type = ParsedAddSidesetGenerator
    input = inner_1
    combinatorial_geometry = 'x > 469.1 & x < 530.1 & y > 459.9 & y < 460.1'
    new_sideset_name = inner_2
    normal = '0.0 1.0 0.0'
  [../]
  [./inner_3]
    type = ParsedAddSidesetGenerator
    input = inner_2
    combinatorial_geometry = 'x > 539.9 & x < 540.1 & y > 459.9'
    new_sideset_name = inner_3
    normal = '-1.0 0.0 0.0'
  [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./layer]
  [../]
  [./resid_x]
  [../]
  [./resid_y]
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y'
    block = 0
    save_in = 'resid_x resid_y'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    save_in = resid_x
    block = 0
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    save_in = resid_y
    block = 0
    eta = 7.854
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     interfaces = '550.0'
     direction = '0 1 0'
     variable = layer
     execute_on = initial
  [../]
[]

[UserObjects]
   [./solution_uo_outer_react_x]
     type = SolutionUserObject
     mesh = output/DRM_layer_2d_outer_out.e
     system_variables = resid_x
   [../]
   [./solution_uo_outer_react_y]
     type = SolutionUserObject
     mesh = output/DRM_layer_2d_outer_out.e
     system_variables = resid_y
   [../]
   [./solution_uo_inner_react_x]
     type = SolutionUserObject
     mesh = output/DRM_layer_2d_inner_out.e
     system_variables = resid_x
   [../]
   [./solution_uo_inner_react_y]
     type = SolutionUserObject
     mesh = output/DRM_layer_2d_inner_out.e
     system_variables = resid_y
   [../]
[]

[Functions]
   [./react_x_outer_fn]
     type = SolutionFunction
     solution = solution_uo_outer_react_x
   [../]
   [./react_y_outer_fn]
     type = SolutionFunction
     solution = solution_uo_outer_react_y
   [../]
   [./react_x_inner_fn]
     type = SolutionFunction
     solution = solution_uo_inner_react_x
   [../]
   [./react_y_inner_fn]
     type = SolutionFunction
     solution = solution_uo_inner_react_y
   [../]
[]

[NodalKernels]
  [./xforce_inner_1]
    type = UserForcingFunctionNodalKernel
    variable = disp_x
    function = react_x_inner_fn
    boundary = inner_1
  [../]
  [./xforce_inner_2]
    type = UserForcingFunctionNodalKernel
    variable = disp_x
    function = react_x_inner_fn
    boundary = inner_2
  [../]
  [./xforce_inner_3]
    type = UserForcingFunctionNodalKernel
    variable = disp_x
    function = react_x_inner_fn
    boundary = inner_3
  [../]
  [./yforce_inner_1]
    type = UserForcingFunctionNodalKernel
    variable = disp_y
    function = react_y_inner_fn
    boundary = inner_1
  [../]
  [./yforce_inner_2]
    type = UserForcingFunctionNodalKernel
    variable = disp_y
    function = react_y_inner_fn
    boundary = inner_2
  [../]
  [./yforce_inner_3]
    type = UserForcingFunctionNodalKernel
    variable = disp_y
    function = react_y_inner_fn
    boundary = inner_3
  [../]
  [./xforce_outer_1]
    type = UserForcingFunctionNodalKernel
    variable = disp_x
    function = react_x_outer_fn
    boundary = outer_1
  [../]
  [./xforce_outer_2]
    type = UserForcingFunctionNodalKernel
    variable = disp_x
    function = react_x_outer_fn
    boundary = outer_2
  [../]
  [./xforce_outer_3]
    type = UserForcingFunctionNodalKernel
    variable = disp_x
    function = react_x_outer_fn
    boundary = outer_3
  [../]
  [./yforce_outer_1]
    type = UserForcingFunctionNodalKernel
    variable = disp_y
    function = react_y_outer_fn
    boundary = outer_1
  [../]
  [./yforce_outer_2]
    type = UserForcingFunctionNodalKernel
    variable = disp_y
    function = react_y_outer_fn
    boundary = outer_2
  [../]
  [./yforce_outer_3]
    type = UserForcingFunctionNodalKernel
    variable = disp_y
    function = react_y_outer_fn
    boundary = outer_3
  [../]
[]

[BCs]
[./NonReflectingBC]
   [./back]
     displacements = 'disp_x disp_y'
     velocities = 'vel_x vel_y'
     accelerations = 'accel_x accel_y'
     beta = 0.25
     gamma = 0.5
     boundary = 'left right bottom'
     shear_wave_speed = 1000.0
     density = 1700.0
     p_wave_speed=1870.829
   [../]
 [../]
[]


[Materials]
  [./linear]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer
    block = 0
    layer_ids = '0'
    shear_modulus = '1.7e9'
    density = '1700.0'
    poissons_ratio = '0.3'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = '0'
    displacements = 'disp_x disp_y'
  [../]

  [./stress_1]
    type = ComputeLinearElasticStress
    block = '0'
  [../]
[]

[Executioner]
  type = Transient
  solve_type = 'PJFNK'
  nl_abs_tol = 1e-8
  start_time = 0.0
  end_time = 1.0
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre     boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./dt]
    type = TimestepSize
  [../]
  [./node_x_50]
    type = PointValue
    point = '500.0 500.0 0.0'
    variable = vel_x
  [../]
  [./node_y_50]
    type = PointValue
    point = '500.0 500.0 0.0'
    variable = vel_y
  [../]
[]

[Outputs]
  file_base = output/small_model_out
  exodus = true
  csv = true
[]

(test/tests/auxkernels/uniform_layer/uniform_layer_1d.i)

[Mesh]
  type = GeneratedMesh
  dim = 1
  nx = 20
  xmax = 100
[]

[AuxVariables]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '10 20 50 1000'
    layer_ids = '6 24 19 80'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(test/tests/materials/isoil/HYS_thin_layer.i)

# One element test to test the auto-generated thin_layer backbone curve for
# Coulomb friction. The top surface of the element (z=0) is fixed and the
# bottom surface (z=1) is moved by applying a cyclic preset displacement.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_thin_layer]
      soil_type = 'thin_layer'
      layer_variable = layer_id
      layer_ids = '0'
      initial_shear_modulus = '20000'
      poissons_ratio = '0.45'
      block = 0
      density = '2.0'
      friction_coefficient = '0.7'
      hardening_ratio = '0.001'
      p_ref = '8.6209091'
      initial_soil_stress = '-8.0263636 0 0  0 -8.0263636 0  0 0 -9.810'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_GQH.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'gqh'
      layer_variable = layer_id
      layer_ids = '0'
      theta_1 = '-2.28'
      theta_2 = '-5.54'
      theta_3 = '1.0'
      theta_4 = '1.0'
      theta_5 = '0.99'
      taumax = '7500'
      initial_shear_modulus = '20000000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_darendeli_verification.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# This test is identical to HYS_darendeli.i except that the element was assumed
# to have zero initial stresses, no self-weight (i.e., zero gravity), and
# undamped vibration. Also, the backbone curve was generated using 100 points
# instead of 10 to increase smoothness.

# The resulting backbone curve was verified against the analytical solution.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'darendeli'
      layer_variable = layer_id
      layer_ids = '0'
      over_consolidation_ratio = '1'
      plasticity_index = '0'
      initial_shear_modulus = '20000'
      number_of_points = 100
      poissons_ratio = '0.3'
      block = 0
      density = '2'
      p_ref = '6.07286'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./gamma_zx_el] # engineering shear strain
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
[]

(tutorial/site_response_1.i)

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 100
  xmin = -0.5
  ymin = -0.5
  zmin = 0.0
  xmax = 0.5
  ymax = 0.5
  zmax = 100.0
  dim = 3
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./layer_id]
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    # displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '20 60 100.1'
     direction = '0.0 0.0 1.0'
     execute_on = initial
  [../]
[]


[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_accel]
    type = PresetAcceleration
    boundary = 'back'
    function = accel_bottom
    variable = 'disp_x'
    beta = 0.25
    acceleration = 'accel_x'
    velocity = 'vel_x'
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom]
     type = PiecewiseLinear
     data_file = 'acceleration_hist.csv'
     format = 'columns'
  [../]
[]

[Materials]
  [./linear_soil]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer_id
    layer_ids = '0 1 2'
    shear_modulus = '3e6 2e6 1e6'
    poissons_ratio = '0.2 0.2 0.2'
    density = '1200 1000 800'
  [../]
  [./strain]
    type = ComputeSmallStrain
    # displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress]
    type = ComputeLinearElasticStress
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  start_time = 0
  end_time = 4
  dt = 0.01
  timestep_tolerance = 1e-6
[]

[Postprocessors]
  [top_ax_pv]
    type = PointValue
    point = '0 0 100'
    variable = 'accel_x'
  []
  [./top_ax_nvv]
    type = NodalVariableValue
    variable = accel_x
    nodeid = 401
  [../]
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x accel_y accel_z'
    nodes = '401'
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.01
    # outputs = out
  [../]
[]


[Outputs]
  csv = true
  exodus = true
[]

(test/tests/materials/isoil/HYS_data_file_pressure_contact.i)

# Test for cyclic tensile and compressive nonlinear soil behavior (without AD)

# Soil column consists of 3 elements, each 1m x 1m x 1m, stacked on top of one
# another vertically. The middle element is nonlinear, while the top and bottom
# elements are linear elastic. The bottom boundary is fixed in all directions.
# A sawtooth pulse is applied in both X and Z directions of the soil column.

# The hydrostatic and vonMises stresses of the nonlinear element are printed out
# as output. When the nonlinear soil element is under tension, the hydrostatic
# stress reduces to zero, and the vonMises stress also reduces to zero
# indicating that the nonlinear soil element has failed. When the element is
# compressed, it regains strength. So, the hydrostatic stress becomes negative
# and vonMises stress becomes non-zero.


[Mesh]
  [./generate]
    type = GeneratedMeshGenerator # Can generate simple lines, rectangles and rectangular prisms
    dim = 3 # Dimension of the mesh
    nx = 1 # Number of elements in the x direction
    ny = 1 # Number of elements in the y direction
    nz = 3 # Number of elements in the z direction
    xmin = 0.0
    xmax = 1
    ymin = 0.0
    ymax = 1
    zmin = 0.0
    zmax = 3.0
  [../]
  [./block1]
    type = SubdomainBoundingBoxGenerator
    input = generate
    bottom_left = '0.0 0.0 0.0'
    top_right = '1.0 1.0 1.0'
    block_id = '1'
  [../]
  [./block2]
    type = SubdomainBoundingBoxGenerator
    input = block1
    bottom_left = '0.0 0.0 1.0'
    top_right = '1.0 1.0 2.0'
    block_id = '2'
  [../]
  [./block3]
    type = SubdomainBoundingBoxGenerator
    input = block2
    bottom_left = '0.0 0.0 2.0'
    top_right = '1.0 1.0 3.0'
    block_id = '3'
  [../]
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  volumetric_locking_correction = true
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./vonmises]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./hydrostatic]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    use_displaced_mesh = false
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
[./accel_x]
  type = NewmarkAccelAux
  variable = accel_x
  displacement = disp_x
  velocity = vel_x
  beta = 0.25
  execute_on = timestep_end
[../]
[./vel_x]
  type = NewmarkVelAux
  variable = vel_x
  acceleration = accel_x
  gamma = 0.5
  execute_on = timestep_end
[../]
[./accel_y]
  type = NewmarkAccelAux
  variable = accel_y
  displacement = disp_y
  velocity = vel_y
  beta = 0.25
  execute_on = timestep_end
[../]
[./vel_y]
  type = NewmarkVelAux
  variable = vel_y
  acceleration = accel_y
  gamma = 0.5
  execute_on = timestep_end
[../]
[./accel_z]
  type = NewmarkAccelAux
  variable = accel_z
  displacement = disp_z
  velocity = vel_z
  beta = 0.25
  execute_on = timestep_end
[../]
[./vel_z]
  type = NewmarkVelAux
  variable = vel_z
  acceleration = accel_z
  gamma = 0.5
  execute_on = timestep_end
[../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '4.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./vonmises]
    type = RankTwoScalarAux
    rank_two_tensor = stress
    variable = vonmises
    scalar_type = vonmisesStress
  [../]
  [./hydrostatic]
    type = RankTwoScalarAux
    rank_two_tensor = stress
    variable = hydrostatic
    scalar_type = hydrostatic
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 'back'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./top_disp]
    type = FunctionDirichletBC
    variable = disp_x
    function = top_disp
    boundary = front
  [../]
  [./top_disp_z]
    type = FunctionDirichletBC
    variable = disp_z
    function = top_disp_z
    boundary = front
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    x = '0.0 1.0 2.0 3.0 4.0 8.0'
    y = '0.0 1.0 0.0 -1.0 0.0 0.0'
    scale_factor = 5e-3
  [../]
  [./top_disp_z]
    type = PiecewiseLinear
    x = '0.0 1.0 2.0 3.0 4.0 5.0 6.0 8.0'
    y = '0.0 -2.0 0.0 3.0 0.0 -2.0 0.0 0.0'
    scale_factor = -5e-3
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain_test_1.csv'
    poissons_ratio = '0.3'
    pressure_dependency = true
    a0 = 0
    a1 = 0
    a2 = 1
    b_exp = 0.5
    p_ref = 1e-4
    tension_pressure_cut_off = -1e-9
    initial_shear_modulus = '5e-4'
    block = 2
  [../]
  [./sample_isoil_strain]
    type = ComputeIncrementalSmallStrain
    block = '1 2 3'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '2'
    shear_modulus = '5e-4'
    poissons_ratio = '0.3'
    density = '6'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [./sample_isoil_elasticitytensor2]
    type = ComputeIsotropicElasticityTensorSoil
    block = '1 3'
    elastic_modulus = '1.0e-2'
    poissons_ratio = '0.3'
    density = '2e-2'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [./sample_soil]
    type = ComputeFiniteStrainElasticStress
    block = '1 3'
  [../]
[]

[Preconditioning]
  [./smp]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON

  start_time = 0.0
  end_time = 6.0
  dt = 0.01
  dtmin = 0.01
  nl_max_its = 200
  timestep_tolerance = 1e-6
  nl_rel_tol = 5e-5
  nl_abs_tol = 1e-7
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_x
  [../]
  [./disp_6y]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_y
  [../]
  [./disp_6z]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_z
  [../]
  [./strain_zx]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 1
  [../]
  [./stress_zx]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 1
  [../]
  [./hydrostatic]
    type = ElementalVariableValue
    variable = hydrostatic
    elementid = 1
  [../]
  [./vonmises]
    type = ElementalVariableValue
    variable = vonmises
    elementid = 1
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
  [./console]
    type = Console
    max_rows = 1
  [../]
[]

(test/tests/materials/isoil/HYS_GQH_twolayers.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 2
  xmin = -0.5
  ymin = -0.5
  zmin = 0.0
  xmax = 0.5
  ymax = 0.5
  zmax = 2.0
  dim = 3
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '1.0 2.02'
    direction = '0.0 0.0 1.0'
    execute_on = initial
  [../]
[]

[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_disp]
    type = PresetDisplacement
    boundary = 'back'
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = disp_bottom
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./disp_bottom]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
  [./initial_zz]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (2.0 - z)'
  [../]
  [./initial_xx]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (2.0 - z) * 0.3/0.7'
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_all]
       block = 0
       layer_variable = layer_id
       layer_ids = '0 1'
       initial_soil_stress = 'initial_xx 0 0 0 initial_xx 0 0 0 initial_zz'
       poissons_ratio = '0.3 0.3'
       soil_type = 'gqh'
       number_of_points = 100
       ### GQ/H ####
       initial_shear_modulus = '125000000 118098000'
       theta_1 = '-6.66 -6.86'
       theta_2 = '5.5 5.7'
       theta_3 = '1.0 1.0'
       theta_4 = '1.0 1.0'
       theta_5 = '0.99 0.99'
       taumax = '292500 277500'
       p_ref = '236841 224695'
       density = '2000.0 2000.0'
       a0 = 1.0
       a1 = 0.0
       a2 = 0.0
       b_exp = 0.0
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.05
  timestep_tolerance = 1e-8
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 10
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 10
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 10
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 10
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 10
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 10
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 10
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 10
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 10
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 1
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 1
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 1
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 1
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 1
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 1
  [../]
  [./gamma_zx_el] # engineering shear strain
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 1
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 1
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 1
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 1
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 1
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 1
  [../]
[]

[Outputs]
  exodus = true
  csv = true
[]

(test/tests/materials/isoil/HYS_GQH_noaction.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'gqh'
    layer_variable = layer_id
    layer_ids = '0'
    theta_1 = '-2.28'
    theta_2 = '-5.54'
    theta_3 = '1.0'
    theta_4 = '1.0'
    theta_5 = '0.99'
    taumax = '7500'
    initial_shear_modulus = '20000000'
    number_of_points = 10
    poissons_ratio = '0.3'
    initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
  [../]
  [./sample_isoil_strain]
    type = ComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20000000'
    poissons_ratio = '0.3'
    density = '2000'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_data_file_AD_jac.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 2 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  #use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    use_automatic_differentiation = true
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '4.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 'back'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 'left right top bottom'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 'left right top bottom'
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
 [./top_x]
    type = FunctionDirichletBC
    boundary = front
    variable = disp_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    x = '0.0 1.0 2.0 3.0 4.0 8.0'
    y = '0.0 1.0 0.0 -1.0 0.0 0.0'
    scale_factor = 3e-3
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain_test_1.csv'
    poissons_ratio = '0.3'
  [../]
  [./sample_isoil_strain]
    type = ADComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '0'
    elastic_modulus = '1.0'
    poissons_ratio = '0.3'
    density = '2'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON

  start_time = 0.0
  end_time = 4.0
  dt = 0.5
  dtmin = 0.5
  timestep_tolerance = 1e-6
  nl_rel_tol = 5e-5
  nl_abs_tol = 1e-7
  #petsc_options = '-snes_test_jacobian_view'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_x
  [../]
  [./disp_6y]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_y
  [../]
  [./disp_6z]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_z
  [../]
  [./strain_zx]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 1
  [../]
  [./stress_zx]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 1
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/auxkernels/uniform_layer/uniform_layer.i)

[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 20
  ny = 20
  nz = 20
  xmax = 100
  ymax = 100
  zmax = 100
[]

[AuxVariables]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '10 20 50 1000'
    direction = '1 1 2'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(test/tests/auxkernels/uniform_layer/uniform_layer_2d.i)

[Mesh]
  type = GeneratedMesh
  dim = 2
  nx = 20
  ny = 20
  xmax = 100
  ymax = 100
[]

[AuxVariables]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '20 40 78 1000'
    layer_ids = '6 24 19 80'
    direction = '1 2 0'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(test/tests/materials/isoil/HYS_darendeli_AD.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress vs shear strain curve was verified against that obtained
# from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'darendeli'
      layer_variable = layer_id
      layer_ids = '0'
      over_consolidation_ratio = '1'
      plasticity_index = '0'
      initial_shear_modulus = '20000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
      density = '2'
      p_ref = '6.07286'
      use_automatic_differentiation = true
    [../]
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  file_base = HYS_darendeli_out
  [./out]
    type = Exodus
    sync_times = '0 1 2 3 4 5 6 7 8'
    sync_only = true
  [../]
[]

(examples/ex09/SSI_Response.i)

[Mesh]
  type = FileMesh
  file = Full_3D_Str_red.e
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
  [./rot_x]
    block = '3 4 6'
  [../]
  [./rot_y]
    block = '3 4 6'
  [../]
  [./rot_z]
    block = '3 4 6'
  [../]
[]

[AuxVariables]
  [./stress_x]
  [../]
  [./stress_y]
  [../]
  [./stress_z]
  [../]
  [./vel_x]
  [../]
  [./vel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_x]
  [../]
  [./accel_y]
  [../]
  [./accel_z]
  [../]
  [./rot_vel_x]
    block = '3 4 6'
  [../]
  [./rot_vel_y]
    block = '3 4 6'
  [../]
  [./rot_vel_z]
    block = '3 4 6'
  [../]
  [./rot_accel_x]
    block = '3 4 6'
  [../]
  [./rot_accel_y]
    block = '3 4 6'
  [../]
  [./rot_accel_z]
    block = '3 4 6'
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Physics/SolidMechanics/LineElement/QuasiStatic]
  displacements = 'disp_x disp_y disp_z'
  rotations = 'rot_x rot_y rot_z'

  # dynamic simulation using consistent mass/inertia matrix
  dynamic_nodal_translational_inertia = true

  velocities = 'vel_x vel_y vel_z'
  accelerations = 'accel_x accel_y accel_z'
  rotational_velocities = 'rot_vel_x rot_vel_y rot_vel_z'
  rotational_accelerations = 'rot_accel_x rot_accel_y rot_accel_z'

  beta = 0.25 # Newmark time integration parameter
  gamma = 0.5 # Newmark time integration parameter

  [./block_3]
    block = 3
    area = 500
    Iy = 1e3
    Iz = 1e3
    y_orientation = '0.0 1.0 0.0'
    nodal_mass = 0.1
    boundary = 'B0'
  [../]
  [./block_4]
    block = 4
    area = 500
    Iy = 1e3
    Iz = 1e3
    y_orientation = '1.0 0.0 0.0'
    nodal_mass = 0.1
    boundary = 'B0'
  [../]
  [./block_6]
    block = 6
    area = 500
    Iy = 1e3
    Iz = 1e3
    y_orientation = '0.0 1.0 0.0'
    nodal_mass = 166.0
    density = 2.7
    boundary = 'B1'
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    block = '1 2'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    block = '1 2'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    block = '1 2'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    block = '1 2'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = 'timestep_end'
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = 'timestep_end'
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = 'timestep_end'
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = 'timestep_end'
  [../]
  [./layer_id]
    type = UniformLayerAuxKernel
    block = '1'
    variable = layer_id
    interfaces = '29.6'
    direction = '0.0 0.0 1.0'
    execute_on = initial
  [../]
[]

[Materials]
  [./elastic_soil]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer_id
    layer_ids = '0'
    poissons_ratio = '0.3'
    density = '1.7'
    shear_modulus = '46282.5'
    block = '1'
  [../]
  [./elasticity_base]
    type = ComputeIsotropicElasticityTensor
    youngs_modulus = 1e10
    poissons_ratio = 0
    block = '2'
  [../]
  [./stress_beam2]
    type = ComputeFiniteStrainElasticStress
    block = '1 2'
  [../]
  [./strain_15]
    type = ComputeFiniteStrain
    block = '1 2'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./density]
    type = GenericConstantMaterial
    block = '2'
    prop_names = density
    prop_values =  2.7
  [../]
  [./elasticity_beam_rigid]
    type = ComputeElasticityBeam
    youngs_modulus = 1e10
    poissons_ratio = 0.3
    shear_coefficient = 0.85
    block = '3 4 6'
  [../]
  [./stress_beam]
    type = ComputeBeamResultants
    block = '3 4 6'
  [../]
[]

[BCs]
  [./disp_x]
    type = PresetAcceleration
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    function = accel_bottom
    boundary = 'NZ'
  [../]
  [./disp_y]
    type = DirichletBC
    boundary = 'NZ'
    variable = disp_y
    value = 0.0
  [../]
  [./disp_z]
    type = DirichletBC
    boundary = 'NZ'
    variable = disp_z
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'NX'
      secondary = 'PX'
      translation = '75.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'NY'
      secondary = 'PY'
      translation = '0.0 75.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom]
    type = PiecewiseLinear
    data_file = Ormsby_USE1.csv
    format = 'columns'
    scale_factor = 1
  [../]
[]

[Preconditioning]
  [./smp]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-7
  nl_rel_tol = 1e-7
  l_tol = 1e-7
  l_max_its = 12
  start_time = 0.0
  end_time = 3.0
  dt = 0.001
  timestep_tolerance = 1e-6
  petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
  petsc_options_value = 'lu       superlu_dist'
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x'
    nodes =  '23935 2331 104 5'
    outputs = out
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.001
    damping_ratio = 0.01
    start_frequency = 0.1
    end_frequency = 1000
    outputs = out
  [../]
[]

[Outputs]
  csv = true
  exodus = true
  perf_graph = true
  print_linear_residuals = true
  [./out]
    execute_on = 'FINAL'
    type = CSV
    file_base = SSI_NoDamp_RigidStr
  [../]
  [./out2]
    type = Exodus
    file_base = Exod_SSI_NoDamp_RigidStr
    interval = 10
  [../]
[]

(test/tests/mastodonblock/model/noaction_dynamic.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
    eta = 0.64026
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
    eta = 0.64026
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
    eta = 0.64026
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_GQH_noaction_AD.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./stress_div_x]
    type = ADDynamicStressDivergenceTensors
    variable = disp_x
    component = 0
    zeta = 0.00006366
    use_displaced_mesh = false
  [../]
  [./stress_div_y]
    type = ADDynamicStressDivergenceTensors
    variable = disp_y
    component = 1
    zeta = 0.00006366
    use_displaced_mesh = false
  [../]
  [./stress_div_z]
    type = ADDynamicStressDivergenceTensors
    variable = disp_z
    component = 2
    zeta = 0.00006366
    use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'gqh'
    layer_variable = layer_id
    layer_ids = '0'
    theta_1 = '-2.28'
    theta_2 = '-5.54'
    theta_3 = '1.0'
    theta_4 = '1.0'
    theta_5 = '0.99'
    taumax = '7500'
    initial_shear_modulus = '20000000'
    number_of_points = 10
    poissons_ratio = '0.3'
    initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
  [../]
  [./sample_isoil_strain]
    type = ADComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20000000'
    poissons_ratio = '0.3'
    density = '2000'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  dtmin = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_check_jacobian'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex01a/HYS_darendeli.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress vs shear strain curve was verified against that obtained
# from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'darendeli'
      layer_variable = layer_id
      layer_ids = '0'
      over_consolidation_ratio = '1'
      plasticity_index = '0'
      initial_shear_modulus = '20000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
      density = '2'
      p_ref = '6.07286'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_data_file.i)

#@requirement F4.2
# One element test to test the user-defined  backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve is same as the one provided as input.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    #use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    #use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    #use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.85
    #use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    #use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      layer_variable = layer_id
      layer_ids = '0'
      soil_type = 'user_defined'
      backbone_curve_files = 'stress_strain_darendeli.csv'
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
      initial_shear_modulus = '20155518.98'
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex03a/shear_beam_Isoil_free_field.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 20
  xmin = -0.5
  ymin = -0.5
  zmin = 0.0
  xmax = 0.5
  ymax = 0.5
  zmax = 20.0
  dim = 3
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20.2'
     direction = '0.0 0.0 1.0'
     execute_on = initial
  [../]
[]

[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_accel]
    type = PresetAcceleration
    boundary = 'back'
    function = accel_bottom
    variable = 'disp_x'
    beta = 0.25
    acceleration = 'accel_x'
    velocity = 'vel_x'
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom]
     type = PiecewiseLinear
     data_file = chichi_bc_mpss_xp20.csv
     format = 'columns'
  [../]
  [./initial_zz]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z)'
  [../]
  [./initial_xx]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z) * 0.3/0.7'
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_all]
       block = 0
       layer_variable = layer_id
       layer_ids = '0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19'
       initial_soil_stress = 'initial_xx 0 0 0 initial_xx 0 0 0 initial_zz'
       poissons_ratio = '0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3'
       soil_type = 'gqh'
       number_of_points = 100
       ### GQ/H ####
       initial_shear_modulus = '125000000 118098000 111392000 103968000 96800000 89888000 83232000 76832000 70688000 64800000 59168000 53792000 48672000 43808000 39200000 34848000 30752000 26912000 23328000 20000000'
       theta_1 = '-6.66 -6.86 -7.06 -7.35 -7.65 -7.95 -8.3 -8.61 -8.95 -9.3 -9.61 -9.92 -10.0 -10.0 -10.0 -10.0 -10.0 -9.31 -7.17 -5.54'
       theta_2 = '5.5 5.7 5.9 6.2 6.6 6.9 7.3 7.6 8.0 8.4 8.6 8.8 8.82 8.71 8.55 8.3 7.88 6.4 2.4 -2.28'
       theta_3 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
       theta_4 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
       theta_5 = '0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99'
       taumax = '292500 277500 262500 247500 232500 217500 202500 187500 172500 157500 142500 127500 112500 97500 82500 67500 52500 37500 22500 7500'
       p_ref = '236841 224695 212550 200404 188258 176112 163967 151821 139675 127530 115384 103238 91092 78947 66801 54655 42510 30364 18218 6072'
       ######
       density = '2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0'
       a0 = 1.0
       a1 = 0.0
       a2 = 0.0
       b_exp = 0.0
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-6
  nl_rel_tol = 1e-6
  l_tol = 1e-6
  l_max_its = 50
  start_time = 0.0
  end_time = 85.4
  dt = 0.005
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./accelx_top]
    type = PointValue
    point = '0.0 0.0 20.0'
    variable = accel_x
  [../]
  [./accelx_top1]
    type = PointValue
    point = '0.0 0.0 19.0'
    variable = accel_x
  [../]
  [./accelx_mid]
    type = PointValue
    point = '0.0 0.0 10.0'
    variable = accel_x
  [../]
  [./accelx_bot]
    type = PointValue
    point = '0.0 0.0 0.0'
    variable = accel_x
  [../]
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x'
    nodes = '80'
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.005
    outputs = out
  [../]
[]

[Outputs]
  csv = true
  exodus = true
  perf_graph = true
  print_linear_residuals = true
  [./out]
   type = CSV
   execute_on = 'timestep_begin'
   file_base = topsoil_response
  [../]
  [./screen]
   type = Console
   max_rows = 1
   interval = 1000
  [../]
[]

(test/tests/materials/isoil/HYS_darendeli.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress vs shear strain curve was verified against that obtained
# from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'darendeli'
      layer_variable = layer_id
      layer_ids = '0'
      over_consolidation_ratio = '1'
      plasticity_index = '0'
      initial_shear_modulus = '20000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
      density = '2'
      p_ref = '6.07286'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  [./out]
    type = Exodus
    sync_times = '0 1 2 3 4 5 6 7 8'
    sync_only = true
  [../]
[]

(test/tests/materials/isoil/HYS_darendeli_noaction_AD.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress vs shear strain curve was verified against that obtained
# from DEEPSOIL.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  #use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'darendeli'
    layer_variable = layer_id
    layer_ids = '0'
    over_consolidation_ratio = '1'
    plasticity_index = '0'
    initial_shear_modulus = '20000'
    number_of_points = 10
    poissons_ratio = '0.3'
    initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
    p_ref = '6.07286'
    wave_speed_calculation = true
  [../]
  [./sample_isoil_strain]
    type = ADComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20000'
    poissons_ratio = '0.3'
    density = '2'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  [./out]
    type = Exodus
    sync_times = '0 1 2 3 4 5 6 7 8'
    sync_only = true
  [../]
[]

(test/tests/auxkernels/uniform_layer/uniform_layer_3d.i)

#@requirement F3.3
#@requirement DI1.3
[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 20
  ny = 20
  nz = 20
  xmax = 100
  ymax = 100
  zmax = 100
[]

[AuxVariables]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '20 40 78 1000'
    layer_ids = '6 24 19 80'
    direction = '1 2 3'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(examples/ex02b/HYS_GQH_Explicit.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    # stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = TestNewmarkTI
    variable = accel_x
    displacement = disp_x
    first = false
  [../]
  [./vel_x]
    type = TestNewmarkTI
    variable = vel_x
    displacement = disp_x
  [../]
  [./accel_y]
    type = TestNewmarkTI
    variable = accel_y
    displacement = disp_y
    first = false
  [../]
  [./vel_y]
    type = TestNewmarkTI
    variable = vel_y
    displacement = disp_y
  [../]
  [./accel_z]
    type = TestNewmarkTI
    variable = accel_z
    displacement = disp_z
    first = false
  [../]
  [./vel_z]
    type = TestNewmarkTI
    variable = vel_z
    displacement = disp_z
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = FunctionDirichletBC
    boundary = 5
    function = top_disp
    variable = 'disp_x'
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = '../ex01a/Displacement2.csv'
    format = columns
  [../]
[]

# [Materials]
#   [./sample_isoil]
#     type = ComputeISoilStress
#     soil_type = 'gqh'
#     layer_variable = layer_id
#     layer_ids = '0'
#     initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
#     poissons_ratio = '0.3'
#     number_of_points = 10
#     ### GQ/H ####
#     initial_shear_modulus = '20000000'
#     theta_1 = '-2.28'
#     theta_2 = '-5.54'
#     theta_3 = '1.0'
#     theta_4 = '1.0'
#     theta_5 = '0.99'
#     taumax = '7500'
#     block = '0'
#   [../]
#   [./sample_isoil_strain]
#     type = ComputeIncrementalSmallStrain
#     block = '0'
#     displacements = 'disp_x disp_y disp_z'
#     implicit = false
#   [../]
#   [./sample_isoil_elasticitytensor]
#     type = ComputeIsotropicElasticityTensorSoil
#     block = '0'
#     density = '2000'
#     wave_speed_calculation = false
#     layer_ids = '0'
#     poissons_ratio = '0.3'
#     shear_modulus = '20000000'
#     layer_variable = layer_id
#   [../]
# []

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'gqh'
      layer_variable = layer_id
      layer_ids = '0'
      theta_1 = '-2.28'
      theta_2 = '-5.54'
      theta_3 = '1.0'
      theta_4 = '1.0'
      theta_5 = '0.99'
      taumax = '7500'
      initial_shear_modulus = '20000000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  start_time = 0.0
  end_time = 8.0
  timestep_tolerance = 1e-6
  l_abs_tol = 1e-12
  [./TimeIntegrator]
    type = CentralDifference
  [../]
  [./TimeStepper]
    type = PostprocessorDT
    postprocessor = time_step
    dt = 0.001
  [../]
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
  [./time_step]
    type = CriticalTimeStep
    factor = 0.9
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
  file_base = HYS_GQH_explicit
[]

(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency_AD.i)

# One element test to check pressure dependent stiffness and yield strength calcualtion.

# The element is first intialized with stresses corresponding to acceleration due to gravity (g).
# Then a body force equal to 3 * g is applied to the element thereby increasing the pressure experienced
# by the element. The element is then sheared by moving the front surface (z = 0) in the x direction.

# The resulting stress-strain curve is stiffer due to the increase in pressure and also the maximum/ultimate shear
# stress at which the material completely fails is also higher due to the yield strength pressure correction.

# Two combinations of the parameters a_0, a_1, and a_2 were tested using this input file, but only
# one case can be used at a time.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -29.43
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = 'initial'
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'user_defined'
      layer_variable = layer_id
      layer_ids = '0'
      backbone_curve_files = 'stress_strain20.csv'
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-12613 0 0  0 -12613 0  0 0 -29430'
      pressure_dependency = true
      b_exp = 0.5
      p_ref = 6072.86
      tension_pressure_cut_off = -1
      density = '2000'
      initial_shear_modulus = '19683812.98'

      # Case 1
      a0 = 0
      a1 = 0
      a2 = 1

      # Case 2
      #a0 = 0
      #a1 = 1
      #a2 = 0
      use_automatic_differentiation = true
    [../]
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 10
  dt = 0.05
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  file_base = HYS_stiffness_and_strength_pressure_dependency_out
  [./out]
    type = Exodus
    hide = 'vel_x vel_y vel_z accel_x accel_y accel_z'
  [../]
  csv = true
  perf_graph = false
[]

(examples/ex03a/shear_beam_Isoil_free_field_AD.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 20
  xmin = -0.5
  ymin = -0.5
  zmin = 0.0
  xmax = 0.5
  ymax = 0.5
  zmax = 20.0
  dim = 3
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20.2'
     direction = '0.0 0.0 1.0'
     execute_on = initial
  [../]
[]

[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_accel]
    type = PresetAcceleration
    boundary = 'back'
    function = accel_bottom
    variable = 'disp_x'
    beta = 0.25
    acceleration = 'accel_x'
    velocity = 'vel_x'
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom]
     type = PiecewiseLinear
     data_file = chichi_bc_mpss_xp20.csv
     format = 'columns'
  [../]
  [./initial_zz]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z)'
  [../]
  [./initial_xx]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z) * 0.3/0.7'
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_all]
       block = 0
       layer_variable = layer_id
       layer_ids = '0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19'
       initial_soil_stress = 'initial_xx 0 0 0 initial_xx 0 0 0 initial_zz'
       poissons_ratio = '0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3'
       soil_type = 'gqh'
       number_of_points = 100
       ### GQ/H ####
       initial_shear_modulus = '125000000 118098000 111392000 103968000 96800000 89888000 83232000 76832000 70688000 64800000 59168000 53792000 48672000 43808000 39200000 34848000 30752000 26912000 23328000 20000000'
       theta_1 = '-6.66 -6.86 -7.06 -7.35 -7.65 -7.95 -8.3 -8.61 -8.95 -9.3 -9.61 -9.92 -10.0 -10.0 -10.0 -10.0 -10.0 -9.31 -7.17 -5.54'
       theta_2 = '5.5 5.7 5.9 6.2 6.6 6.9 7.3 7.6 8.0 8.4 8.6 8.8 8.82 8.71 8.55 8.3 7.88 6.4 2.4 -2.28'
       theta_3 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
       theta_4 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
       theta_5 = '0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99'
       taumax = '292500 277500 262500 247500 232500 217500 202500 187500 172500 157500 142500 127500 112500 97500 82500 67500 52500 37500 22500 7500'
       p_ref = '236841 224695 212550 200404 188258 176112 163967 151821 139675 127530 115384 103238 91092 78947 66801 54655 42510 30364 18218 6072'
       ######
       density = '2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0'
       a0 = 1.0
       a1 = 0.0
       a2 = 0.0
       b_exp = 0.0
       use_automatic_differentiation = true
    [../]
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-6
  nl_rel_tol = 1e-6
  start_time = 0
  end_time = 85.4
  dt = 0.001
  l_max_its = 50
  timestep_tolerance = 1e-6
[]

[Postprocessors]
  [./accelx_top]
    type = PointValue
    point = '0.0 0.0 20.0'
    variable = accel_x
  [../]
  [./accelx_top1]
    type = PointValue
    point = '0.0 0.0 19.0'
    variable = accel_x
  [../]
  [./accelx_mid]
    type = PointValue
    point = '0.0 0.0 10.0'
    variable = accel_x
  [../]
  [./accelx_bot]
    type = PointValue
    point = '0.0 0.0 0.0'
    variable = accel_x
  [../]
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x'
    nodes = '80'
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.005
    outputs = out
  [../]
[]

[Outputs]
  csv = true
  exodus = true
  perf_graph = true
  print_linear_residuals = true
  [./out]
   type = CSV
   execute_on = 'final'
   file_base = topsoil_response_AD
  [../]
 [./screen]
   type = Console
   max_rows = 1
   interval = 1000
 [../]
[]

(examples/ex02a/HYS_GQH.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = '../ex01a/Displacement2.csv'
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'gqh'
      layer_variable = layer_id
      layer_ids = '0'
      theta_1 = '-2.28'
      theta_2 = '-5.54'
      theta_3 = '1.0'
      theta_4 = '1.0'
      theta_5 = '0.99'
      taumax = '7500'
      initial_shear_modulus = '20000000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/outputs/noaction_stress_strain_output.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex07/fixed_inner.i)

[Mesh]
  [./generate]
    type = GeneratedMeshGenerator
    dim = 2
    xmin = 450.0
    xmax = 550.0
    ymin = 450.0
    ymax = 500.0
    nx = 10
    ny = 5
  [../]
  [./SubdomainBoundingBoxGenerator]
    type = SubdomainBoundingBoxGenerator
    input = generate
    block_id = 1
    bottom_left = '460.0 460.0 0.0'
    top_right = '540.0 500.0 0.0'
  [../]
  [./ed0]
    type = BlockDeletionGenerator
    input = SubdomainBoundingBoxGenerator
    block_id = 1
    depends_on = SubdomainBoundingBoxGenerator
  [../]
  [./outer_1]
    type = ParsedAddSidesetGenerator
    input = ed0
    combinatorial_geometry = 'x > 449.9 & x < 450.1 & y > 449.9'
    new_sideset_name = outer_1
    normal = '-1.0 0.0 0.0'
  [../]
  [./outer_2]
    type = ParsedAddSidesetGenerator
    input = outer_1
    combinatorial_geometry = 'x > 459.1 & x < 541.0 & y > 449.9 & y < 450.1'
    new_sideset_name = outer_2
    normal = '0.0 -1.0 0.0'
  [../]
  [./outer_3]
    type = ParsedAddSidesetGenerator
    input = outer_2
    combinatorial_geometry = 'x > 549.1 & x < 550.1 & y > 449.9'
    new_sideset_name = outer_3
    normal = '1.0 0.0 0.0'
  [../]
  [./inner_1]
    type = ParsedAddSidesetGenerator
    input = outer_3
    combinatorial_geometry = 'x > 459.9 & x < 460.1 & y > 459.9'
    new_sideset_name = inner_1
    normal = '1.0 0.0 0.0'
  [../]
  [./inner_2]
    type = ParsedAddSidesetGenerator
    input = inner_1
    combinatorial_geometry = 'x > 469.1 & x < 530.1 & y > 459.9 & y < 460.1'
    new_sideset_name = inner_2
    normal = '0.0 1.0 0.0'
  [../]
  [./inner_3]
    type = ParsedAddSidesetGenerator
    input = inner_2
    combinatorial_geometry = 'x > 539.9 & x < 540.1 & y > 459.9'
    new_sideset_name = inner_3
    normal = '-1.0 0.0 0.0'
  [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./layer]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./resid_x]
  [../]
  [./resid_y]
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y'
    block = 0
    save_in = 'resid_x resid_y'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    save_in = resid_x
    block = 0
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    save_in = resid_y
    block = 0
    eta = 7.854
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     interfaces = '550.0'
     direction = '0 1 0'
     variable = layer
     execute_on = initial
  [../]
[]

[UserObjects]
   [./solution_disp_x]
     type = SolutionUserObject
     mesh = output/big_model_out.e
     system_variables = disp_x
   [../]
   [./solution_disp_y]
     type = SolutionUserObject
     mesh = output/big_model_out.e
     system_variables = disp_y
   [../]
[]

[Functions]
   [./soln_dispx_fn]
     type = SolutionFunction
     solution = solution_disp_x
     scale_factor = -1.0
   [../]
   [./soln_dispy_fn]
     type = SolutionFunction
     solution = solution_disp_y
     scale_factor = -1.0
   [../]
[]

[BCs]
  [./disp_outer_1x]
    type = FunctionDirichletBC
    variable = disp_x
    boundary = outer_1
    function = soln_dispx_fn
  [../]
  [./disp_outer_2x]
    type = FunctionDirichletBC
    variable = disp_x
    boundary = outer_2
    function = soln_dispx_fn
  [../]
  [./disp_outer_3x]
    type = FunctionDirichletBC
    variable = disp_x
    boundary = outer_3
    function = soln_dispx_fn
  [../]
  [./disp_inner_1x]
    type = DirichletBC
    variable = disp_x
    boundary = inner_1
    value = 0.0
  [../]
  [./disp_inner_2x]
    type = DirichletBC
    variable = disp_x
    boundary = inner_2
    value = 0.0
  [../]
  [./disp_inner_3x]
    type = DirichletBC
    variable = disp_x
    boundary = inner_3
    value = 0.0
  [../]
  [./disp_outer_1y]
    type = FunctionDirichletBC
    variable = disp_y
    boundary = outer_1
    function = soln_dispy_fn
  [../]
  [./disp_outer_2y]
    type = FunctionDirichletBC
    variable = disp_y
    boundary = outer_2
    function = soln_dispy_fn
  [../]
  [./disp_outer_3y]
    type = FunctionDirichletBC
    variable = disp_y
    boundary = outer_3
    function = soln_dispy_fn
  [../]
  [./disp_inner_1y]
    type = DirichletBC
    variable = disp_y
    boundary = inner_1
    value = 0.0
  [../]
  [./disp_inner_2y]
    type = DirichletBC
    variable = disp_y
    boundary = inner_2
    value = 0.0
  [../]
  [./disp_inner_3y]
    type = DirichletBC
    variable = disp_y
    boundary = inner_3
    value = 0.0
  [../]
[]

[Materials]
  [./linear]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer
    block = 0
    layer_ids = '0'
    shear_modulus = '1.7e9'
    density = '1700.0'
    poissons_ratio = '0.3'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = '0'
    displacements = 'disp_x disp_y'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = '0'
  [../]
[]

[Executioner]
  type = Transient
  solve_type = 'PJFNK'
  nl_abs_tol = 1e-8
  start_time = 0.0
  end_time = 1.0
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre     boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./dt]
    type = TimestepSize
  [../]
[]

[Outputs]
  file_base = output/DRM_layer_2d_inner_out
  exodus = true
  csv = true
[]

(examples/ex09/Soil_Response.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 15
  xmin = 0
  ymin = 0
  zmin = 0.0
  xmax = 1
  ymax = 1
  zmax = 29.47
  dim = 3
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '29.8'
    direction = '0.0 0.0 1.0'
    execute_on = initial
  [../]
[]

[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_accel]
    type = PresetAcceleration
    boundary = 'back'
    function = accel_bottom
    variable = 'disp_x'
    beta = 0.25
    acceleration = 'accel_x'
    velocity = 'vel_x'
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom]
    type = PiecewiseLinear
    data_file = Ormsby_USE1.csv
    scale_factor = 1.0
    format = 'columns'
  [../]
  [./initial_zz]
    type = ParsedFunction
    value = '-1.7 * 9.81 * (29.47 - z)'
  [../]
  [./initial_xx]
    type = ParsedFunction
    value = '-1.7 * 9.81 * (29.47 - z) * 0.3/0.7'
  [../]
[]

[Materials]
  [./elastic_soil]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer_id
    layer_ids = '0'
    poissons_ratio = '0.3'
    density = '1.7'
    shear_modulus = '46282.5'
  [../]
  [./stress_beam2]
    type = ComputeFiniteStrainElasticStress
  [../]
  [./strain_15]
    type = ComputeFiniteStrain
    displacements = 'disp_x disp_y disp_z'
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = 'NEWTON'
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  start_time = 0.0
  end_time = 4.0
  dt = 0.001
  dtmin = 0.0001
  nl_abs_tol = 1e-4
  nl_rel_tol = 1e-5
  l_tol = 1e-5
  l_max_its = 25
  timestep_tolerance = 1e-8
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x'
    nodes = '3 63'
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.001
    damping_ratio = 0.01
    start_frequency = 0.1
    end_frequency = 1000
    outputs = out
  [../]
[]

[Outputs]
  csv = true
  exodus = true
  perf_graph = true
  print_linear_residuals = true
  [./out]
    execute_on = 'FINAL'
    type = CSV
    file_base = Soil_Final_NoDamp
  [../]
  [./out2]
    type = Exodus
    file_base = Exod_Soil_Final_NoDamp
    interval = 10
  [../]
[]

(test/tests/auxkernels/uniform_layer/uniform_layer_3d_default_layers.i)

[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 20
  ny = 20
  nz = 20
  xmax = 100
  ymax = 100
  zmax = 100
[]

[AuxVariables]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '20 40 78 1000'
    direction = '1 1 1'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(test/tests/vectorpostprocessors/response_spectra_calculator/response_spectra_calculator.i)

#@requirement F8.2
[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 1
  ny = 1
  nz = 4
  xmin = 0.0
  xmax = 1.0
  ymin = 0.0
  ymax = 1.0
  zmin = 0.0
  zmax = 4.0
[]

[Controls]
   [./period0]
      type = TimePeriod
      disable_objects = 'Kernels/inertia_x Kernels/inertia_y Kernels/inertia_z AuxKernels/accel_x AuxKernels/accel_y AuxKernels/accel_z AuxKernels/vel_x AuxKernels/vel_y AuxKernels/vel_z'
      start_time = 0.0
      end_time = 0.005 # same as dt used in the analysis
   [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
    static_initialization = True
    use_displaced_mesh = True
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = True
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 2
    index_j = 0
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 2
    index_j = 0
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '20'
     direction = '0 0 1'
     execute_on = initial
  [../]
[]

[Materials]
   [./elasticity_tensor]
      type = ComputeIsotropicElasticityTensorSoil
      block = 0
      layer_variable = layer_id
      layer_ids = '0'
      poissons_ratio = '0.3'
      density = '2000.0'
      shear_modulus = '325e7'
   [../]
   [./stress1]
     #Computes the stress, using linear elasticity
     type = ComputeLinearElasticStress
     block = 0
    [../]
    [./strain1]
      #Computes the strain, assuming small strains
      type = ComputeSmallStrain
      block = 0
      displacements = 'disp_x disp_y disp_z'
  [../]
[]

[BCs]
  [./bottom_accel_x]
    type = PresetAcceleration
    boundary = back
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = back
    value = 0.0
  [../]
  [./bottom_accel_y]
    type = PresetAcceleration
    boundary = back
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./Periodic]
    [./x_dir]
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  l_tol = 1e-8
  start_time = 32
  end_time = 33
  dt = 0.005 # should be 0.005
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Outputs]
  [./out]
    type = CSV
    execute_on = 'final'
  [../]
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x accel_y'
    nodes = '8 9'
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.005
    outputs = out
  [../]
[]

(test/tests/materials/isoil/HYS_thin_layer_noaction.i)

# One element test to test the auto-generated thin_layer backbone curve for
# Coulomb friction. The top surface of the element (z=0) is fixed and the
# bottom surface (z=1) is moved by applying a cyclic preset displacement.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'thin_layer'
    layer_variable = layer_id
    layer_ids = '0'
    initial_shear_modulus = '20000'
    poissons_ratio = '0.45'
    friction_coefficient = '0.7'
    hardening_ratio = '0.001'
    p_ref = '8.6209091'
    initial_soil_stress = '-8.0263636 0 0  0 -8.0263636 0  0 0 -9.810'
  [../]
  [./sample_isoil_strain]
    ## Use ComputeFiniteStrain for soil_type = thin_layer since large strains are expected
    type = ComputeFiniteStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20000'
    poissons_ratio = '0.45'
    density = '2.0'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_data_file_pressure_contact_AD.i)

# Test for cyclic tensile and compressive nonlinear soil behavior

# Soil column consists of 3 elements, each 1m x 1m x 1m, stacked on top of one
# another vertically. The middle element is nonlinear, while the top and bottom
# elements are linear elastic. The bottom boundary is fixed in all directions.
# A sawtooth pulse is applied in both X and Z directions of the soil column.

# The hydrostatic and vonMises stresses of the nonlinear element are printed out
# as output. When the nonlinear soil element is under tension, the hydrostatic
# stress reduces to zero, and the vonMises stress also reduces to zero
# indicating that the nonlinear soil element has failed. When the element is
# compressed, it regains strength. So, the hydrostatic stress becomes negative
# and vonMises stress becomes non-zero.

# Running this test with -snes_test_jacobian petsc option shows that the relative
# difference between the hand-coded and the FD jacobian is in the order of 2e-7
# throughout the simulation.

[Mesh]
  [./generate]
    type = GeneratedMeshGenerator # Can generate simple lines, rectangles and rectangular prisms
    dim = 3 # Dimension of the mesh
    nx = 1 # Number of elements in the x direction
    ny = 1 # Number of elements in the y direction
    nz = 3 # Number of elements in the z direction
    xmin = 0.0
    xmax = 1
    ymin = 0.0
    ymax = 1
    zmin = 0.0
    zmax = 3.0
  [../]
  [./block1]
    type = SubdomainBoundingBoxGenerator
    input = generate
    bottom_left = '0.0 0.0 0.0'
    top_right = '1.0 1.0 1.0'
    block_id = '1'
  [../]
  [./block2]
    type = SubdomainBoundingBoxGenerator
    input = block1
    bottom_left = '0.0 0.0 1.0'
    top_right = '1.0 1.0 2.0'
    block_id = '2'
  [../]
  [./block3]
    type = SubdomainBoundingBoxGenerator
    input = block2
    bottom_left = '0.0 0.0 2.0'
    top_right = '1.0 1.0 3.0'
    block_id = '3'
  [../]
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  volumetric_locking_correction = true
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./vonmises]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./hydrostatic]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    use_automatic_differentiation = true
    use_displaced_mesh = false
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
[]

[AuxKernels]
[./accel_x]
  type = NewmarkAccelAux
  variable = accel_x
  displacement = disp_x
  velocity = vel_x
  beta = 0.25
  execute_on = timestep_end
[../]
[./vel_x]
  type = NewmarkVelAux
  variable = vel_x
  acceleration = accel_x
  gamma = 0.5
  execute_on = timestep_end
[../]
[./accel_y]
  type = NewmarkAccelAux
  variable = accel_y
  displacement = disp_y
  velocity = vel_y
  beta = 0.25
  execute_on = timestep_end
[../]
[./vel_y]
  type = NewmarkVelAux
  variable = vel_y
  acceleration = accel_y
  gamma = 0.5
  execute_on = timestep_end
[../]
[./accel_z]
  type = NewmarkAccelAux
  variable = accel_z
  displacement = disp_z
  velocity = vel_z
  beta = 0.25
  execute_on = timestep_end
[../]
[./vel_z]
  type = NewmarkVelAux
  variable = vel_z
  acceleration = accel_z
  gamma = 0.5
  execute_on = timestep_end
[../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '4.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./vonmises]
    type = ADRankTwoScalarAux
    rank_two_tensor = stress
    variable = vonmises
    scalar_type = vonmisesStress
  [../]
  [./hydrostatic]
    type = ADRankTwoScalarAux
    rank_two_tensor = stress
    variable = hydrostatic
    scalar_type = hydrostatic
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 'back'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./top_disp]
    type = FunctionDirichletBC
    variable = disp_x
    function = top_disp
    boundary = front
  [../]
  [./top_disp_z]
    type = FunctionDirichletBC
    variable = disp_z
    function = top_disp_z
    boundary = front
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    x = '0.0 1.0 2.0 3.0 4.0 8.0'
    y = '0.0 1.0 0.0 -1.0 0.0 0.0'
    scale_factor = 5e-3
  [../]
  [./top_disp_z]
    type = PiecewiseLinear
    x = '0.0 1.0 2.0 3.0 4.0 5.0 6.0 8.0'
    y = '0.0 -2.0 0.0 3.0 0.0 -2.0 0.0 0.0'
    scale_factor = -5e-3
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain_test_1.csv'
    poissons_ratio = '0.3'
    pressure_dependency = true
    a0 = 0
    a1 = 0
    a2 = 1
    b_exp = 0.5
    p_ref = 1e-4
    tension_pressure_cut_off = -1e-9
    block = 2
  [../]
  [./sample_isoil_strain]
    type = ADComputeIncrementalSmallStrain
    block = '1 2 3'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '2'
    elastic_modulus = '1.0'
    poissons_ratio = '0.3'
    density = '6'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [./sample_isoil_elasticitytensor2]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '1 3'
    elastic_modulus = '1.0e-2'
    poissons_ratio = '0.3'
    density = '2e-2'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [./sample_soil]
    type = ADComputeFiniteStrainElasticStress
    block = '1 3'
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./smp]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON

  start_time = 0.0
  end_time = 6.0
  dt = 0.01
  dtmin = 0.01
  nl_max_its = 200
  timestep_tolerance = 1e-6
  nl_rel_tol = 5e-5
  nl_abs_tol = 1e-7
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_x
  [../]
  [./disp_6y]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_y
  [../]
  [./disp_6z]
    type = PointValue
    point = '0.0 0.0 1.0'
    variable = disp_z
  [../]
  [./strain_zx]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 1
  [../]
  [./stress_zx]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 1
  [../]
  [./hydrostatic]
    type = ElementalVariableValue
    variable = hydrostatic
    elementid = 1
  [../]
  [./vonmises]
    type = ElementalVariableValue
    variable = vonmises
    elementid = 1
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
  [./console]
    type = Console
    max_rows = 1
  [../]
[]

(test/tests/auxkernels/uniform_layer/uniform_layer_2d_nodal.i)

[Mesh]
  type = GeneratedMesh
  dim = 2
  nx = 20
  ny = 20
  xmax = 100
  ymax = 100
[]

[AuxVariables]
  [./layer_id]
  [../]
[]

[AuxKernels]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '20 40 78 1000'
    layer_ids = '6 24 19 80'
    direction = '1 1 0'
    execute_on = initial
  [../]
[]

[Executioner]
  type = Steady
[]

[Problem]
  solve = false
[]

[Outputs]
  exodus = true
[]

(test/tests/materials/isoil/HYS_darendeli_noaction.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress vs shear strain curve was verified against that obtained
# from DEEPSOIL.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  #use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'darendeli'
    layer_variable = layer_id
    layer_ids = '0'
    over_consolidation_ratio = '1'
    plasticity_index = '0'
    initial_shear_modulus = '20000'
    number_of_points = 10
    poissons_ratio = '0.3'
    initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
    p_ref = '6.07286'
    wave_speed_calculation = true
  [../]
  [./sample_isoil_strain]
    type = ComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20000'
    poissons_ratio = '0.3'
    density = '2'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  [./out]
    type = Exodus
    sync_times = '0 1 2 3 4 5 6 7 8'
    sync_only = true
  [../]
[]

(test/tests/mastodonblock/combined/mastodon_block_actions.i)

# One element model to test Mastodon Block Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

# UPDATE THIS FILE WITH MASTODON BLOCK ACTIONS AS THEY ARE IMPLEMENTED

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
  [./Model]
    dynamic_analysis = true
  [../]
  [./Outputs]
    stress_strain_output = true
  [../]
[]

[AuxVariables]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[AuxKernels]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex01b/HYS_darendeli_explicit.i)

# One element test to test the auto-generated Darendeli backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress vs shear strain curve was verified against that obtained
# from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    # stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = TestNewmarkTI
    variable = accel_x
    displacement = disp_x
    first = false
  [../]
  [./vel_x]
    type = TestNewmarkTI
    variable = vel_x
    displacement = disp_x
  [../]
  [./accel_y]
    type = TestNewmarkTI
    variable = accel_y
    displacement = disp_y
    first = false
  [../]
  [./vel_y]
    type = TestNewmarkTI
    variable = vel_y
    displacement = disp_y
  [../]
  [./accel_z]
    type = TestNewmarkTI
    variable = accel_z
    displacement = disp_z
    first = false
  [../]
  [./vel_z]
    type = TestNewmarkTI
    variable = vel_z
    displacement = disp_z
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = FunctionDirichletBC
    boundary = 5
    function = top_disp
    variable = 'disp_x'
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = '../ex01a/Displacement2.csv'
    format = columns
  [../]
[]

# [Materials]
#   [./sample_isoil]
#     type = ComputeISoilStress
#     soil_type = 'darendeli'
#     layer_variable = layer_id
#     layer_ids = '0'
#     initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
#     poissons_ratio = '0.3'
#     number_of_points = 10
#     over_consolidation_ratio = '1'
#     plasticity_index = '0'
#     initial_shear_modulus = '20000'
#     p_ref = '6.07286'
#     block = '0'
#   [../]
#   [./sample_isoil_strain]
#     type = ComputeIncrementalSmallStrain
#     block = '0'
#     displacements = 'disp_x disp_y disp_z'
#     implicit = false
#   [../]
#   [./sample_isoil_elasticitytensor]
#     type = ComputeIsotropicElasticityTensorSoil
#     block = '0'
#     density = '2'
#     wave_speed_calculation = false
#     layer_ids = '0'
#     poissons_ratio = '0.3'
#     shear_modulus = '20000'
#     layer_variable = layer_id
#   [../]
# []

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'darendeli'
      layer_variable = layer_id
      layer_ids = '0'
      over_consolidation_ratio = '1'
      plasticity_index = '0'
      initial_shear_modulus = '20000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4.204286 0 0  0 -4.204286 0  0 0 -9.810'
      density = '2'
      p_ref = '6.07286'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  start_time = 0.0
  end_time = 8.0
  timestep_tolerance = 1e-6
  l_abs_tol = 1e-12
  [./TimeIntegrator]
    type = CentralDifference
  [../]
  [./TimeStepper]
    type = PostprocessorDT
    postprocessor = time_step
    dt = 0.001
  [../]
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
  [./time_step]
    type = CriticalTimeStep
    factor = 0.9
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
  file_base = Test # HYS_Darendeli_explicit
[]

(test/tests/materials/isoil/HYS_pressure_dependent_strength.i)

# One element test to check pressure dependent strength calcualtion.

# The element is first intialized with stresses corresponding to acceleration due to gravity (g).
# Then a body force equal to 3 * g is applied to the element thereby increasing the pressure experienced
# by the element. The element is then sheared by moving the front surface (z = 0) in the x direction.

# The stength of the resulting stress-strain can be varied with pressure dependent stength parameters,
# a0, a1, and a2, and with p_ref. Setting b_exp = 0 assures that MASTODON does not directly modify the
# backbone stiffness. Although, a change in strength naturally leads to one in stiffness.

# Five combinations of the parameters a_0, a_1, a_2, and p_ref were tested using this input file,
# but only one case can be used at a time.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -29.43
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'user_defined'
      layer_variable = layer_id
      layer_ids = '0'
      backbone_curve_files = 'stress_strain20.csv'
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-12613 0 0  0 -12613 0  0 0 -29430'
      pressure_dependency = true
      b_exp = 0.0
      tension_pressure_cut_off = -1
      density = '2000'
      initial_shear_modulus = '19683812.98'

      ## Case 1
      a0 = 0
      a1 = 0
      a2 = 1
      p_ref = 6072.86

      ## Case 2
      #a0 = 0
      #a1 = 1
      #a2 = 0
      #p_ref = 6072.86

      ## Case 3
      #a0 = 1
      #a1 = 0
      #a2 = 0
      #p_ref = 6072.86

      ## Case 4
      #a0 = 0
      #a1 = 1
      #a2 = 0
      #p_ref = 29430

      ## Case 5
      #a0 = 0
      #a1 = 1
      #a2 = 0
      #p_ref = 42043
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8.0
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./gamma_zx_el]
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
  [./mean_stress]
    type = LinearCombinationPostprocessor
    pp_names = 'stress_xx_el stress_yy_el stress_zz_el'
    pp_coefs = '-0.3333 -0.3333 -0.3333'
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex04/2BlockFriction_Isoilunit.i)

[Mesh]
  type = FileMesh
  file = '2blockfriction_isoilunit.e'
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
[]

[Kernels]
  [./TensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta=0.0
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta=0.0
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.0
  [../]
[]

[AuxKernels]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 2
    index_j = 0
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 2
    index_j = 0
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 0
    index_j = 1
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 1
    index_j = 2
  [../]
  [./layers]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '11.0'
     direction = '0.0 0.0 1.0'
     block = 1002
     execute_on = initial
  [../]
[]

[BCs]
[./bottom_x]
 type = DirichletBC
  variable = disp_x
  boundary = 109
  value = 0.0
[../]
[./bottom_y]
   type = DirichletBC
   variable = disp_y
   boundary = 109
   value = 0.0
[../]
[./bottom_z]
   type = DirichletBC
   variable = disp_z
   boundary = 109
   value = 0.0
[../]
[./Periodic]
  [./x_dir1]
    variable = 'disp_x disp_y disp_z'
    primary = '101'
    secondary = '103'
    translation = '10.0 0.0 0.0'
  [../]
  [./y_dir1]
    variable = 'disp_x disp_y disp_z'
    primary = '102'
    secondary = '104'
    translation = '0.0 10.0 0.0'
  [../]
  [./x_dir2]
    variable = 'disp_x disp_y disp_z'
    primary = '105'
    secondary = '107'
    translation = '10.0 0.0 0.0'
  [../]
  [./y_dir2]
    variable = 'disp_x disp_y disp_z'
    primary = '106'
    secondary = '108'
    translation = '0.0 10.0 0.0'
  [../]
[../]
  [./X-dir]
      type = FunctionDirichletBC
      boundary = 110
      variable = disp_x
      function = loading_bc
  [../]
[]

[Functions]
[./loading_bc]
   type = PiecewiseLinear
   data_file = 'rampload8_unit.csv'
   format = columns
[../]
[./initial_zztop]
  type = ParsedFunction
  value = '8792.0 * -9.81 * (21.0 - z)'
[../]
[./initial_ytop]
  type = ParsedFunction
  value = '8792.0 * -9.81 * (21.0 - z) * 0.2/0.8'
[../]
[./initial_zzmid]
  type = ParsedFunction
  value = '-862495.2 - 2500.0 * -9.81 * (11.0 - z)'
[../]
[./initial_ymid]
  type = ParsedFunction
  value = '(-862495.2 - 2500.0 * -9.81 * (11.0 - z)) * 0.45/0.55'
[../]
[./initial_zzbot]
  type = ParsedFunction
  value = '-887020.2 - 2500.0 * -9.81 * (10.0 - z)'
[../]
[./initial_ybot]
  type = ParsedFunction
  value = '(-887020.2 - 2500.0 * -9.81 * (10.0 - z)) * 0.3/0.7'
[../]
[]

[Materials]
  [./elasticity_tensor_top]
    youngs_modulus = 6.5e10 #Pa
    poissons_ratio = 0.2
    type = ComputeIsotropicElasticityTensor
    block = 1003
  [../]
  [./strain_top]
    #Computes the strain, assuming small strains
    type = ComputeIncrementalSmallStrain
    block = 1003
    displacements = 'disp_x disp_y disp_z'
    eigenstrain_names = ini_stress
  [../]
  [./strain_from_initial_stress]
    type = ComputeEigenstrainFromInitialStress
    initial_stress = '0 0 0 0 0 0 0 0 initial_zztop'
    eigenstrain_name = ini_stress
  [../]
  [./stress_top]
    #Computes the stress, using linear elasticity
    type = ComputeFiniteStrainElasticStress
    block = 1003
  [../]
  [./den_top]
    type = GenericConstantMaterial
    block = 1003
    prop_names = density
    prop_values = 8792 #kg/m3
  [../]

  [./elasticity_tensor_bot]
    youngs_modulus = 7e9#Pa
    poissons_ratio = 0.3
    type = ComputeIsotropicElasticityTensor
    block = 1001
  [../]
  [./strain_bot]
    #Computes the strain, assuming small strains
    type = ComputeIncrementalSmallStrain
    block = 1001
    displacements = 'disp_x disp_y disp_z'
    eigenstrain_names = 'ini_stress_bot'
  [../]
  [./stress_bot]
    #Computes the stress, using linear elasticity
    type = ComputeFiniteStrainElasticStress
    block = 1001
  [../]
  [./strain_from_initial_stress_bot]
    type = ComputeEigenstrainFromInitialStress
    block = 1001
    initial_stress = 'initial_ybot 0 0 0 initial_ybot 0 0 0 initial_zzbot'
    eigenstrain_name = ini_stress_bot
  [../]
  [./den_bot]
    type = GenericConstantMaterial
    block = 1001
    prop_names = density
    prop_values = 2500 #kg/m3
  [../]
  [./I_Soil]
    [./soil1]
      layer_variable = layer_id
      layer_ids = '0'
      soil_type = 'user_defined'
      backbone_curve_files = 'backbone_curveunit.csv'
      poissons_ratio = '0.45'
      block = 1002
      initial_soil_stress = 'initial_ymid 0 0  0 initial_ymid 0  0 0 initial_zzmid'
      density = '2500'
      #initial_bulk_modulus = '7.83e10'
      initial_shear_modulus = '2.70588e11'
      #taumax = 275998
  #    theta_1 = '0'
  #    theta_2 = '0'
  #    theta_3 = '0'
  #    theta_4 = '0'
  #    theta_5 = '0'
      pressure_dependency = true
      #b_exp = 0.0
      p_ref = 880500
      #tension_pressure_cut_off = -1
      a0 = 0
      a1 = 0
      a2 = 1
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-7
  nl_rel_tol = 1e-7
  l_tol = 1e-6
  l_max_its = 20
  start_time = 0
  end_time = 1.2
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
  type = TimestepSize
  [../]
  [./stres_xx_interface]
  type = ElementAverageValue
  block = '1002'
  variable = stress_xx
  [../]
  [./stres_xy_interface]
  type = ElementAverageValue
  block = '1002'
  variable = stress_xy
  [../]
  [./stres_yy_interface]
  type = ElementAverageValue
  block = '1002'
  variable = stress_yy
  [../]
  [./stres_yz_interface]
  type = ElementAverageValue
  block = '1002'
  variable = stress_yz
  [../]
  [./stres_zz_interface]
  type = ElementAverageValue
  block = '1002'
  variable = stress_zz
  [../]
  [./stress_zx_interface]
  type = ElementAverageValue
  block = '1002'
  variable = stress_zx
  [../]
  [./strain_zx_interface]
  type = ElementAverageValue
  block = '1002'
  variable = strain_zx
  [../]
[]

[Outputs]
  csv = true
  exodus = true
  perf_graph = true
  print_linear_residuals = false
  [./screen]
    type = Console
    max_rows = 1
  [../]
[]

(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency_noaction.i)

# One element test to check pressure dependent stiffness and yield strength calcualtion.

# The element is first intialized with stresses corresponding to acceleration due to gravity (g).
# Then a body force equal to 3 * g is applied to the element thereby increasing the pressure experienced
# by the element. The element is then sheared by moving the front surface (z = 0) in the x direction.

# The resulting stress-strain curve is stiffer due to the increase in pressure and also the maximum/ultimate shear
# stress at which the material completely fails is also higher due to the yield strength pressure correction.

# This file DOESNOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -29.43
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = 'initial'
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain20.csv'
    poissons_ratio = '0.3'
    initial_soil_stress = '-12613 0 0  0 -12613 0  0 0 -29430'
    pressure_dependency = true
    b_exp = 0.5
    p_ref = 6072.86
    tension_pressure_cut_off = -1
    initial_shear_modulus = '19683812.98'
    a0 = 0
    a1 = 0
    a2 = 1
  [../]
  [./sample_isoil_strain]
    type = ComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '19683812.98'
    poissons_ratio = '0.3'
    density = '2000'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 10
  dt = 0.05
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  [./out]
    type = Exodus
    hide = 'vel_x vel_y vel_z accel_x accel_y accel_z'
  [../]
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_stiffness_and_strength_pressure_dependency.i)

# One element test to check pressure dependent stiffness and yield strength calcualtion.

# The element is first intialized with stresses corresponding to acceleration due to gravity (g).
# Then a body force equal to 3 * g is applied to the element thereby increasing the pressure experienced
# by the element. The element is then sheared by moving the front surface (z = 0) in the x direction.

# The resulting stress-strain curve is stiffer due to the increase in pressure and also the maximum/ultimate shear
# stress at which the material completely fails is also higher due to the yield strength pressure correction.

# Two combinations of the parameters a_0, a_1, and a_2 were tested using this input file, but only
# one case can be used at a time.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -29.43
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = 'initial'
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'user_defined'
      layer_variable = layer_id
      layer_ids = '0'
      backbone_curve_files = 'stress_strain20.csv'
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-12613 0 0  0 -12613 0  0 0 -29430'
      pressure_dependency = true
      b_exp = 0.5
      p_ref = 6072.86
      tension_pressure_cut_off = -1
      density = '2000'
      initial_shear_modulus = '19683812.98'

      # Case 1
      a0 = 0
      a1 = 0
      a2 = 1

      # Case 2
      #a0 = 0
      #a1 = 1
      #a2 = 0
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 10
  dt = 0.05
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  [./out]
    type = Exodus
    hide = 'vel_x vel_y vel_z accel_x accel_y accel_z'
  [../]
  csv = true
  perf_graph = false
[]

(examples/ex07/fixed_outer.i)

[Mesh]
  [./generate]
    type = GeneratedMeshGenerator
    dim = 2
    xmin = 450.0
    xmax = 550.0
    ymin = 450.0
    ymax = 500.0
    nx = 10
    ny = 5
  [../]
  [./SubdomainBoundingBox]
    type = SubdomainBoundingBox
    input = generate
    block_id = 1
    bottom_left = '460.0 460.0 0.0'
    top_right = '540.0 500.0 0.0'
  [../]
  [./ed0]
    type = BlockDeletionGenerator
    input = SubdomainBoundingBoxGenerator
    block_id = 1
  [../]
  [./outer_1] # outer-left boundary
    type = ParsedAddSidesetGenerator
    input = ed0
    combinatorial_geometry = 'x > 449.9 & x < 450.1 & y > 449.9'
    new_sideset_name = outer_1
    normal = '-1.0 0.0 0.0'
  [../]
  [./outer_2] # outer-bottom boundary
    type = ParsedAddSidesetGenerator
    input = outer_1
    combinatorial_geometry = 'x > 459.1 & x < 541.0 & y > 449.9 & y < 450.1'
    new_sideset_name = outer_2
    normal = '0.0 -1.0 0.0'
  [../]
  [./outer_3] # outer-right boundary
    type = ParsedAddSidesetGenerator
    input = outer_2
    combinatorial_geometry = 'x > 549.1 & x < 550.1 & y > 449.9'
    new_sideset_name = outer_3
    normal = '1.0 0.0 0.0'
  [../]
  [./inner_1] # inner-left boundary
    type = ParsedAddSidesetGenerator
    input = outer_3
    combinatorial_geometry = 'x > 459.9 & x < 460.1 & y > 459.9'
    new_sideset_name = inner_1
    normal = '1.0 0.0 0.0'
  [../]
  [./inner_2] # inner-bottom boundary
    type = ParsedAddSidesetGenerator
    input = inner_1
    combinatorial_geometry = 'x > 469.1 & x < 530.1 & y > 459.9 & y < 460.1'
    new_sideset_name = inner_2
    normal = '0.0 1.0 0.0'
  [../]
  [./inner_3] # inner-right boundary
    type = ParsedAddSidesetGenerator
    input = inner_2
    combinatorial_geometry = 'x > 539.9 & x < 540.1 & y > 459.9'
    new_sideset_name = inner_3
    normal = '-1.0 0.0 0.0'
  [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./layer]
  [../]
  [./resid_x]
  [../]
  [./resid_y]
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y'
    block = 0
    save_in = 'resid_x resid_y'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    save_in = resid_x
    block = 0
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    save_in = resid_y
    block = 0
    eta = 7.854
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     interfaces = '550.0'
     direction = '0 1 0'
     variable = layer
     execute_on = initial
  [../]
[]

[UserObjects]
   [./solution_disp_x]
     type = SolutionUserObject
     mesh = output/big_model_out.e
     system_variables = disp_x
   [../]
   [./solution_disp_y]
     type = SolutionUserObject
     mesh = output/big_model_out.e
     system_variables = disp_y
   [../]
[]

[Functions]
   [./soln_dispx_fn]
     type = SolutionFunction
     solution = solution_disp_x
   [../]
   [./soln_dispy_fn]
     type = SolutionFunction
     solution = solution_disp_y
   [../]
[]

[BCs]
  [./disp_inner_1x]
    type = FunctionDirichletBC
    variable = disp_x
    boundary = inner_1
    function = soln_dispx_fn
  [../]
  [./disp_inner_2x]
    type = FunctionDirichletBC
    variable = disp_x
    boundary = inner_2
    function = soln_dispx_fn
  [../]
  [./disp_inner_3x]
    type = FunctionDirichletBC
    variable = disp_x
    boundary = inner_3
    function = soln_dispx_fn
  [../]
  [./disp_outer_1x]
    type = DirichletBC
    variable = disp_x
    boundary = outer_1
    value = 0.0
  [../]
  [./disp_outer_2x]
    type = DirichletBC
    variable = disp_x
    boundary = outer_2
    value = 0.0
  [../]
  [./disp_outer_3x]
    type = DirichletBC
    variable = disp_x
    boundary = outer_3
    value = 0.0
  [../]
  [./disp_inner_1y]
    type = FunctionDirichletBC
    variable = disp_y
    boundary = inner_1
    function = soln_dispy_fn
  [../]
  [./disp_inner_2y]
    type = FunctionDirichletBC
    variable = disp_y
    boundary = inner_2
    function = soln_dispy_fn
  [../]
  [./disp_inner_3y]
    type = FunctionDirichletBC
    variable = disp_y
    boundary = inner_3
    function = soln_dispy_fn
  [../]
  [./disp_outer_1y]
    type = DirichletBC
    variable = disp_y
    boundary = outer_1
    value = 0.0
  [../]
  [./disp_outer_2y]
    type = DirichletBC
    variable = disp_y
    boundary = outer_2
    value = 0.0
  [../]
  [./disp_outer_3y]
    type = DirichletBC
    variable = disp_y
    boundary = outer_3
    value = 0.0
  [../]
[]

[Materials]
  [./linear]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer
    block = 0
    layer_ids = '0'
    shear_modulus = '1.7e9'
    density = '1700.0'
    poissons_ratio = '0.3'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = '0'
    displacements = 'disp_x disp_y'
  [../]

  [./stress_1]
    type = ComputeLinearElasticStress
    block = '0'
  [../]
[]

[Executioner]
  type = Transient
  solve_type = 'PJFNK'
  nl_abs_tol = 1e-8
  start_time = 0.0
  end_time = 1.0
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre     boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./dt]
    type = TimestepSize
  [../]
[]

[Outputs]
  file_base = output/DRM_layer_2d_outer_out
  exodus = true
  csv = true
[]

(test/tests/materials/isoil/HYS_data_file_verification.i)

# One element test to test the user-defined  backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# This test is identical to HYS_data_file.i except that the element was assumed
# to have zero initial stresses, no self-weight (i.e., zero gravity), and
# undamped vibration.

# The resulting backbone curve is identical to the one provided as input.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    #use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    #use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    #use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    #use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      layer_variable = layer_id
      layer_ids = '0'
      soil_type = 'user_defined'
      backbone_curve_files = 'stress_strain_darendeli.csv'
      poissons_ratio = '0.3'
      initial_shear_modulus = '19571500'
      block = 0
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./gamma_zx_el] # engineering shear strain
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
[]

(test/tests/mastodonblock/model/model_static.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
  [./Model]
    dynamic_analysis = false
  [../]
[]

[Variables]
  inactive = 'disp_x disp_y disp_z'
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  inactive = 'DynamicTensorMechanics'
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
[]

[AuxKernels]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    boundary = 0
    variable = disp_x
    value = 0
  [../]
  [./y_bot]
    type = DirichletBC
    boundary = 0
    variable = disp_y
    value = 0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./x_top]
    type = FunctionDirichletBC
    boundary = 5
    variable = disp_x
    function = disp_top_x
  [../]
  [./y_top]
    type = FunctionDirichletBC
    boundary = 5
    variable = disp_y
    function = disp_top_y
  [../]
[]

[Functions]
  [./disp_top_x]
    type = PiecewiseLinear
    data_file = 'disp.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./disp_top_y]
    type = PiecewiseLinear
    data_file = 'disp.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.3'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/combined/mastodon_block_actions_2D.i)

# One element model to test Mastodon Block Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

# UPDATE THIS FILE WITH MASTODON BLOCK ACTIONS AS THEY ARE IMPLEMENTED

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 2 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
[]

[Mastodon]
  [./Model]
    dynamic_analysis = true
    dim = 2
    eta = 0.64026
    zeta = 0.000781
  [../]
  [./Outputs]
    stress_strain_output = true
  [../]
[]

[AuxVariables]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[AuxKernels]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 1 0'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = bottom
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = bottom
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y'
      primary = left
      secondary = right
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_x
  [../]
  [./disp_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_y
  [../]
  [./vel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_x
  [../]
  [./vel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_y
  [../]
  [./accel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_x
  [../]
  [./accel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_y
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/model/model_dynamic_2D.i)

# One element 2D model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 2 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
[]

[Mastodon]
  [./Model]
    block = 0
    dynamic_analysis = true
    dim = 2
    eta = 0.64026
    zeta = 0.000781
  [../]
[]

[Variables]
  inactive = 'disp_x disp_y'
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  inactive = 'accel_x vel_x accel_y vel_y'
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  inactive = 'DynamicTensorMechanics inertia_x inertia_y'
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  inactive = 'accel_x vel_x accel_y vel_y'
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 1 0'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = bottom
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = bottom
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y'
      primary = left
      secondary = right
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_x
  [../]
  [./disp_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_y
  [../]
  [./vel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_x
  [../]
  [./vel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_y
  [../]
  [./accel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_x
  [../]
  [./accel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_y
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/pra/sub_sub.i)

# Test to demonstrate the Seismic Probabilistic Risk Assessment (SPRA)
# infrastructure in MASTODON. This test involves three input files:
#
# 1. master.i - The Master file that bins the hazard curve and scales ground
# motions for each bin for use in probabilistic simulations.
#
# 2. sub.i - The file that obtains the scaled ground motions from master.i and
# transfers these ground motions as inputs to the finite-element model and also
# contains the parameters for probabilistic simulation. This file acts as the
# sub file for master.i and master file for subsub.i.
#
# 3. subsub.i - The file that contains the finite-element model.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Controls]
  # needed for probabilistic simulations
  [./stochastic]
   type = SamplerReceiver
  [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  # PiecewiseLinear function that is receiving scaled GMs from sub.i. Inputs here are dummy.
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'gm_data/ground_motion_00.csv'
    format = columns
    scale_factor = 1.0
    xy_in_file_only = false
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    poissons_ratio = '0.3'
    density = '2000.0'
    shear_modulus = '1.2e5'
    scale_factor_density = 1.0
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  end_time = 0.05
  dt = 0.005
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./accel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_x
  [../]
  [./accel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_y
  [../]
  [./accel_2z]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_z
  [../]
[]

[Outputs]
  csv = true
[]

(test/tests/materials/isoil/HYS_data_file_AD.i)

#@requirement F4.2
# One element test to test the user-defined  backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve is same as the one provided as input.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    #use_displaced_mesh = false
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
    #use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
    #use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.85
    density = 'reg_density'
    #use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    density = 'reg_density'
    #use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      layer_variable = layer_id
      layer_ids = '0'
      soil_type = 'user_defined'
      backbone_curve_files = 'stress_strain_darendeli.csv'
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
      density = '2000'
      initial_shear_modulus = '20155518.98'
      use_automatic_differentiation = true
    [../]
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex03b/shear_beam_Isoil_free_field_explicit.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 20
  xmin = -0.5
  ymin = -0.5
  zmin = 0.0
  xmax = 0.5
  ymax = 0.5
  zmax = 20.0
  dim = 3
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    # stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    # eta = 0.64026
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    # eta = 0.64026
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    # eta = 0.64026
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./accel_x]
    type = TestNewmarkTI
    variable = accel_x
    displacement = disp_x
    first = false
  [../]
  [./vel_x]
    type = TestNewmarkTI
    variable = vel_x
    displacement = disp_x
  [../]
  [./accel_y]
    type = TestNewmarkTI
    variable = accel_y
    displacement = disp_y
    first = false
  [../]
  [./vel_y]
    type = TestNewmarkTI
    variable = vel_y
    displacement = disp_y
  [../]
  [./accel_z]
    type = TestNewmarkTI
    variable = accel_z
    displacement = disp_z
    first = false
  [../]
  [./vel_z]
    type = TestNewmarkTI
    variable = vel_z
    displacement = disp_z
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20.2'
     direction = '0.0 0.0 1.0'
     execute_on = initial
  [../]
[]

[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_shake]
    type = FunctionDirichletBC
    boundary = 'back'
    function = disp_bottom
    variable = 'disp_x'
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./disp_bottom]
     type = PiecewiseLinear
     data_file = chichi_bc_mpss_xp20_disp.csv
     format = 'columns'
  [../]

  [./initial_zz]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z)'
  [../]
  [./initial_xx]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z) * 0.3/0.7'
  [../]
[]

# [Materials]
#   [./sample_isoil]
#     type = ComputeISoilStress
#     soil_type = 'gqh'
#     layer_variable = layer_id
#     layer_ids = '0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19'
#     initial_soil_stress = 'initial_xx 0 0 0 initial_xx 0 0 0 initial_zz'
#     poissons_ratio = '0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3'
#     number_of_points = 100
#     ### GQ/H ####
#     initial_shear_modulus = '125000000 118098000 111392000 103968000 96800000 89888000 83232000 76832000 70688000 64800000 59168000 53792000 48672000 43808000 39200000 34848000 30752000 26912000 23328000 20000000'
#     theta_1 = '-6.66 -6.86 -7.06 -7.35 -7.65 -7.95 -8.3 -8.61 -8.95 -9.3 -9.61 -9.92 -10.0 -10.0 -10.0 -10.0 -10.0 -9.31 -7.17 -5.54'
#     theta_2 = '5.5 5.7 5.9 6.2 6.6 6.9 7.3 7.6 8.0 8.4 8.6 8.8 8.82 8.71 8.55 8.3 7.88 6.4 2.4 -2.28'
#     theta_3 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
#     theta_4 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
#     theta_5 = '0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99'
#     taumax = '292500 277500 262500 247500 232500 217500 202500 187500 172500 157500 142500 127500 112500 97500 82500 67500 52500 37500 22500 7500'
#     p_ref = '236841 224695 212550 200404 188258 176112 163967 151821 139675 127530 115384 103238 91092 78947 66801 54655 42510 30364 18218 6072'
#     ######
#     a0 = 1.0
#     a1 = 0.0
#     a2 = 0.0
#     b_exp = 0.0
#     block = '0'
#   [../]
#   [./sample_isoil_strain]
#     type = ComputeIncrementalSmallStrain
#     block = '0'
#     displacements = 'disp_x disp_y disp_z'
#     implicit = false
#   [../]
#   [./sample_isoil_elasticitytensor]
#     type = ComputeIsotropicElasticityTensorSoil
#     block = '0'
#     density = '2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0'
#     wave_speed_calculation = false
#     layer_ids = '0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19'
#     poissons_ratio = '0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3'
#     shear_modulus = '125000000 118098000 111392000 103968000 96800000 89888000 83232000 76832000 70688000 64800000 59168000 53792000 48672000 43808000 39200000 34848000 30752000 26912000 23328000 20000000'
#     layer_variable = layer_id
#   [../]
# []

[Materials]
  [./I_Soil]
    [./soil_all]
       block = 0
       layer_variable = layer_id
       layer_ids = '0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19'
       initial_soil_stress = 'initial_xx 0 0 0 initial_xx 0 0 0 initial_zz'
       poissons_ratio = '0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3'
       soil_type = 'gqh'
       number_of_points = 100
       ### GQ/H ####
       initial_shear_modulus = '125000000 118098000 111392000 103968000 96800000 89888000 83232000 76832000 70688000 64800000 59168000 53792000 48672000 43808000 39200000 34848000 30752000 26912000 23328000 20000000'
       theta_1 = '-6.66 -6.86 -7.06 -7.35 -7.65 -7.95 -8.3 -8.61 -8.95 -9.3 -9.61 -9.92 -10.0 -10.0 -10.0 -10.0 -10.0 -9.31 -7.17 -5.54'
       theta_2 = '5.5 5.7 5.9 6.2 6.6 6.9 7.3 7.6 8.0 8.4 8.6 8.8 8.82 8.71 8.55 8.3 7.88 6.4 2.4 -2.28'
       theta_3 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
       theta_4 = '1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0'
       theta_5 = '0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99 0.99'
       taumax = '292500 277500 262500 247500 232500 217500 202500 187500 172500 157500 142500 127500 112500 97500 82500 67500 52500 37500 22500 7500'
       p_ref = '236841 224695 212550 200404 188258 176112 163967 151821 139675 127530 115384 103238 91092 78947 66801 54655 42510 30364 18218 6072'
       ######
       density = '2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0 2000.0'
       a0 = 1.0
       a1 = 0.0
       a2 = 0.0
       b_exp = 0.0
    [../]
  [../]
[]

[Executioner]
  type = Transient
  start_time = 0.0
  end_time = 85.4
  timestep_tolerance = 1e-6
  l_abs_tol = 1e-12
  # dt = 0.001
  [./TimeIntegrator]
    type = CentralDifference
  [../]
  [./TimeStepper]
    type = PostprocessorDT
    postprocessor = time_step
    dt = 0.001
  [../]
[]

[Postprocessors]
  [./accelx_top]
    type = PointValue
    point = '0.0 0.0 20.0'
    variable = accel_x
  [../]
  [./accelx_top1]
    type = PointValue
    point = '0.0 0.0 19.0'
    variable = accel_x
  [../]
  [./accelx_mid]
    type = PointValue
    point = '0.0 0.0 10.0'
    variable = accel_x
  [../]
  [./accelx_bot]
    type = PointValue
    point = '0.0 0.0 0.0'
    variable = accel_x
  [../]
  [./time_step]
    type = CriticalTimeStep
    factor = 0.9
  [../]
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x'
    nodes = '80'
  [../]
  [./accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.001
    outputs = out
  [../]
[]

[Outputs]
  csv = true
  exodus = true
  perf_graph = true
  print_linear_residuals = true
  [./out]
   type = CSV
   execute_on = 'timestep_begin'
   file_base = topsoil_response_explicit
  [../]
  [./screen]
   type = Console
   max_rows = 1
   interval = 1000
  [../]
[]

(examples/ex07/big_model.i)

[Mesh]
  type = GeneratedMesh
  dim = 2
  nx = 100
  ny = 50
  xmin = 0.0
  xmax = 1000.0
  ymin = 0.0
  ymax = 500.0
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./layer]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y'
    block = 0
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x1]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    block = 0
    eta = 7.854
  [../]
  [./inertia_y1]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    block = 0
    eta = 7.854
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     interfaces = '550.0'
     direction = '0 1 0'
     variable = layer
     execute_on = initial
  [../]
[]

[DiracKernels]
  [./SeismicSource]
   [./one_source]
    displacements = 'disp_x disp_y'
    slip = y_force
    strike = 0.0 # strike angle =0, x aligned with North
    dip = 0.0 # dip angle = 0, angle fault makes with horizontal
    rake = 90.0 # rake angle = pi/2, gives slip direction
    shear_modulus = 1.996e7
    area = 1.0
    number = 501
    position_function = 'x_pos y_pos'
   [../]
  [../]
[]

[BCs]
[./NonReflectingBC]
   [./back]
     displacements = 'disp_x disp_y'
     velocities = 'vel_x vel_y'
     accelerations = 'accel_x accel_y'
     beta = 0.25
     gamma = 0.5
     boundary = 'left right bottom'
     shear_wave_speed = 1000.0
     density = 1700.0
     p_wave_speed=1870.829
   [../]
 [../]
[]

[Functions]
  [./y_force]
    type = PiecewiseLinear
    data_file = 'slip_displacement_6_5_hz.csv'
    format = 'columns'
  [../]
  [./x_pos]
    type = PiecewiseLinear
    data_file = 'x_position.csv'
    format = 'columns'
  [../]
  [./y_pos]
    type = PiecewiseLinear
    data_file = 'y_position.csv'
    format = 'columns'
  [../]
[]

[Materials]
  [./linear]
    type = ComputeIsotropicElasticityTensorSoil
    layer_variable = layer
    block = 0
    layer_ids = '0'
    shear_modulus = '1.7e9'
    density = '1700.0'
    poissons_ratio = '0.3'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = '0'
    displacements = 'disp_x disp_y'
  [../]

  [./stress_1]
    type = ComputeLinearElasticStress
    block = '0'
  [../]
[]

[Postprocessors]
  [./dt]
    type = TimestepSize
  [../]
  [./node_x_50]
    type = PointValue
    point = '500.0 500.0 0.0'
    variable = vel_x
  [../]
  [./node_y_50]
    type = PointValue
    point = '500.0 500.0 0.0'
    variable = vel_y
  [../]
[]

[Executioner]
  type = Transient
  solve_type = 'NEWTON'
  nl_abs_tol = 1e-8
  start_time = 0.0
  end_time = 1.0
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre     boomeramg      4'
  line_search = 'none'
[]

[Outputs]
  file_base = output/big_model_out
  exodus = true
  csv = true
[]

(test/tests/materials/isoil/HYS_pressure_dependent_stiffness.i)

# One element test to check pressure dependent stiffness calcualtion.

# The element is first intialized with stresses corresponding to acceleration due to gravity (g).
# Then a body force equal to 3 * g is applied to the element thereby increasing the pressure experienced
# by the element. The element is then sheared by moving the front surface (z = 0) in the x direction.

# The resulting stress-strain curve is stiffer due to the increase in pressure but the maximum/ultimate shear
# stress at which the material completely fails still remains the same.

# Three different values of the parameter b_exp were tested using this input file, but only one case
# case can be used at a time.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -29.43
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'user_defined'
      layer_variable = layer_id
      layer_ids = '0'
      backbone_curve_files = 'stress_strain20.csv'
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-12613 0 0  0 -12613 0  0 0 -29430'
      pressure_dependency = true
      #b_exp = 1.0 # Case 1
      b_exp = 0.5 # Case 2
      #b_exp = 0.0 # Case 3
      p_ref = 6072.86
      initial_shear_modulus = '19683812.98'
      tension_pressure_cut_off = -1
      a0 = 1
      a1 = 0
      a2 = 0
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8.0
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./gamma_zx_el]
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
  [./mean_stress]
    type = LinearCombinationPostprocessor
    pp_names = 'stress_xx_el stress_yy_el stress_zz_el'
    pp_coefs = '-0.3333 -0.3333 -0.3333'
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_GQH_twolayers_noaction.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 2
  xmin = -0.5
  ymin = -0.5
  zmin = 0.0
  xmax = 0.5
  ymax = 0.5
  zmax = 2.0
  dim = 3
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '1.0 2.02'
    direction = '0.0 0.0 1.0'
    execute_on = initial
  [../]
[]

[BCs]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_y]
    type = DirichletBC
    variable = disp_y
    boundary = 'back'
    value = 0.0
  [../]
  [./bottom_disp]
    type = PresetDisplacement
    boundary = 'back'
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = disp_bottom
  [../]
  [./Periodic]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./disp_bottom]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
  [./initial_zz]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z)'
  [../]
  [./initial_xx]
    type = ParsedFunction
    value = '-2000.0 * 9.81 * (20.0 - z) * 0.3/0.7'
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'gqh'
    layer_variable = layer_id
    layer_ids = '0 1'
    theta_1 = '-6.66 -6.86'
    theta_2 = '5.5 5.7'
    theta_3 = '1.0 1.0'
    theta_4 = '1.0 1.0'
    theta_5 = '0.99 0.99'
    taumax = '292500 277500'
    p_ref = '236841 224695'
    initial_shear_modulus = '125000000 118098000'
    number_of_points = 100
    poissons_ratio = '0.3 0.3'
    initial_soil_stress = 'initial_xx 0 0 0 initial_xx 0 0 0 initial_zz'
  [../]
  [./sample_isoil_strain]
    type = ComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '125000000 118098000'
    poissons_ratio = '0.3 0.3'
    density = '2000.0 2000.0'
    wave_speed_calculation = false
    layer_ids = '0 1'
    layer_variable = layer_id
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.05
  timestep_tolerance = 1e-8
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 10
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 10
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 10
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 10
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 10
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 10
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 10
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 10
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 10
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 1
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 1
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 1
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 1
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 1
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 1
  [../]
  [./gamma_zx_el] # engineering shear strain
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 1
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 1
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 1
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 1
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 1
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 1
  [../]
[]

[Outputs]
  exodus = true
  csv = true
[]

(test/tests/materials/isoil/HYS_data_file_noaction_AD.i)

#@requirement F4.2
# One element test to test the user-defined  backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve is same as the one provided as input.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.85
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain_darendeli.csv'
    poissons_ratio = '0.3'
    initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
  [../]
  [./sample_isoil_strain]
    type = ADComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '0'
    elastic_modulus = '19571500'
    poissons_ratio = '0.3'
    density = '2000'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(examples/ex13/site_response/sr_input.i)

[Mesh]
  type = GeneratedMesh
  nx = 1
  ny = 1
  nz = 17
  xmin = -0.05
  ymin = -0.05
  zmin = 0.0
  xmax = 0.05
  ymax = 0.05
  zmax = 32.0
  dim = 3
[]

[Variables]
  [disp_x]
    order = FIRST
    family = LAGRANGE
  []
  [disp_y]
    order = FIRST
    family = LAGRANGE
  []
  [disp_z]
    order = FIRST
    family = LAGRANGE
  []
[]

[AuxVariables]
  [vel_x]
  []
  [accel_x]
  []
  [vel_y]
  []
  [accel_y]
  []
  [vel_z]
  []
  [accel_z]
  []
  [layer_id]
    order = CONSTANT
    family = MONOMIAL
  []
[]

[Kernels]
  [DynamicTensorMechanics]
    stiffness_damping_coefficient = 0.0017490 #1.5% 1-20hz
    displacements = 'disp_x disp_y disp_z'
    static_initialization = true
  []
  [inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.0607069 #1.5% 1-20hz
  []
  [inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.0607069 #1.5% 1-20hz
  []
  [inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.0607069 #1.5% 1-20hz
  []
  [gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
  []
[]

[AuxKernels]
  [accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  []
  [vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  []
  [accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  []
  [vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  []
  [accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  []
  [vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  []
  [layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '32'
     direction = '0.0 0.0 1.0'
     execute_on = initial
  []
[]

[Materials]
  [I_Soil]
    [soil_all]
      block = 0
      layer_variable = layer_id
      layer_ids = '0'
      soil_type = 'user_defined'
      backbone_curve_files = '../backbone.csv'
      displacements = 'disp_x disp_y disp_z'
      poissons_ratio = '0.3'
      initial_shear_modulus = '0.523325'
      density = '1.730e-6'
      a0 = 1.0
      a1 = 0.0
      a2 = 0.0
      b_exp = 0.0
    []
  []
[]

[Controls]
  [inertia_switch]
    type = TimePeriod
    start_time = 0.0
    end_time = 0.01
    disable_objects = '*/inertia_x */inertia_y */inertia_z */vel_x */vel_y */vel_z  */accel_x */accel_y */accel_z'
    set_sync_times = true
    execute_on = 'timestep_begin timestep_end'
  []
[]

[Functions]
  [input_motion_x]
    type = PiecewiseLinear
    data_file = '../ground_motion.csv'
    format = columns
    xy_in_file_only = false
    y_index_in_file = 1
  []
  [input_motion_y]
    type = PiecewiseLinear
    data_file = '../ground_motion.csv'
    format = columns
    xy_in_file_only = false
    y_index_in_file = 2
  []
  [input_motion_z]
    type = PiecewiseLinear
    data_file = '../ground_motion.csv'
    format = columns
    xy_in_file_only = false
    y_index_in_file = 3
  []
[]

[BCs]
  [x_motion]
    type = PresetAcceleration
    acceleration = accel_x
    velocity = vel_x
    variable = disp_x
    beta = 0.25
    boundary = 'back'
    function = 'input_motion_x'
  []
  [y_motion]
    type = PresetAcceleration
    acceleration = accel_y
    velocity = vel_y
    variable = disp_y
    beta = 0.25
    boundary = 'back'
    function = 'input_motion_y'
  []
  [z_motion]
    type = PresetAcceleration
    acceleration = accel_z
    velocity = vel_z
    variable = disp_z
    beta = 0.25
    boundary = 'back'
    function = 'input_motion_z'
  []
  [Periodic]
    [y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 0.1 0.0'
    []
    [x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = 'left'
      secondary = 'right'
      translation = '0.1 0.0 0.0'
    []
  []
[]

[VectorPostprocessors]
  [accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x accel_y accel_z'
    nodes = '0 71'
  []
  [accel_spec]
    type = ResponseSpectraCalculator
    vectorpostprocessor = accel_hist
    regularize_dt = 0.002
    damping_ratio = 0.05
    start_frequency = 0.1
    end_frequency = 1000
    outputs = out1
  []
[]

[Preconditioning]
  [smp]
    type = SMP
    full = true
  []
[]

[Executioner]
  type = Transient
  petsc_options = '-ksp_snes_ew'
  petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
  petsc_options_value = 'lu       superlu_dist'
  solve_type = 'NEWTON'
  nl_rel_tol = 1e-7
  nl_abs_tol = 1e-12
  # l_tol = 1e-2
  dt = 0.01
  end_time = 28.0
  timestep_tolerance = 1e-6
  [TimeIntegrator]
    type = NewmarkBeta
    beta = 0.25
    gamma = 0.5
  []
[]

[Outputs]
  exodus = true
  perf_graph = true
  csv = true
  [out1]
    type = CSV
    execute_on = 'final'
  []
[]

(test/tests/materials/isoil/HYS_thin_layer_noaction_AD.i)

# One element test to test the auto-generated thin_layer backbone curve for
# Coulomb friction. The top surface of the element (z=0) is fixed and the
# bottom surface (z=1) is moved by applying a cyclic preset displacement.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ADComputeISoilStress
    soil_type = 'thin_layer'
    layer_variable = layer_id
    layer_ids = '0'
    initial_shear_modulus = '20000'
    poissons_ratio = '0.45'
    friction_coefficient = '0.7'
    hardening_ratio = '0.001'
    p_ref = '8.6209091'
    initial_soil_stress = '-8.0263636 0 0  0 -8.0263636 0  0 0 -9.810'
  [../]
  [./sample_isoil_strain]
    ## Use ComputeFiniteStrain for soil_type = thin_layer since large strains are expected
    type = ADComputeFiniteStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ADComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20000'
    poissons_ratio = '0.45'
    density = '2.0'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/combined/noaction_2D.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 2 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
[]

[Mastodon]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y'
    stiffness_damping_coefficient = 0.000781
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.64026
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 1 0'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = bottom
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = bottom
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y'
      primary = left
      secondary = right
      translation = '1.0 0.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_x
  [../]
  [./disp_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = disp_y
  [../]
  [./vel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_x
  [../]
  [./vel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = vel_y
  [../]
  [./accel_2x]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_x
  [../]
  [./accel_2y]
    type = NodalVariableValue
    nodeid = 2
    variable = accel_y
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_GQH_verification.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# This test is identical to HYS_GQH.i except that the element was assumed to
# have zero initial stresses, no self-weight (i.e., zero gravity), and
# undamped vibration. Also, the backbone curve was generated using 100 points
# instead of 10 to increase smoothness.

# The resulting backbone curve was verified against the analytical solution.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'gqh'
      layer_variable = layer_id
      layer_ids = '0'
      theta_1 = '-2.28'
      theta_2 = '-5.54'
      theta_3 = '1.0'
      theta_4 = '1.0'
      theta_5 = '0.99'
      taumax = '7500'
      initial_shear_modulus = '20000000'
      number_of_points = 100
      poissons_ratio = '0.3'
      block = 0
      density = '2000'
    [../]
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./gamma_zx_el] # engineering shear strain
    type = ScalePostprocessor
    value = strain_zx_el
    scaling_factor = 2
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
[]

(test/tests/bcs/seismic_force/seismic_force_test_z.i)

#@requirement F6.4
# Test for application of seismic force which converts ground velocity in z directions into normal stress.

# This test consists of 20 elements for algorithm testing purposes (use 200 elements and dt of 0.005s to get a much cleaner wave).

# Non-reflecting boundary condition is applied on the back surface (z=0) to simulate an infinitely long soil column.

# Seismic stress proportional to a input velocity in z direction is applied to the front surface (z=1).

# The nodes on the sides are constrained to move together to using periodic boundary.

# Since an infinite soil column is being modeled using the non-reflecting boundary condition, there is no wave reflection from z = 0 boundary.

#Result : The velocity at the front surface should be same as the input velocity provided to the Seismic Force boundary condition.

[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 4
  ny = 4
  nz = 40
  xmin = 0.0
  xmax = 25.0
  ymin = 0.0
  ymax = 25.0
  zmin = 0.0
  zmax = 5000.0
[]

[Controls]
   [./period0]
      type = TimePeriod
      disable_objects = 'Kernels/inertia_x Kernels/inertia_y Kernels/inertia_z AuxKernels/accel_x AuxKernels/accel_y AuxKernels/accel_z AuxKernels/vel_x AuxKernels/vel_y AuxKernels/vel_z'
      start_time = 0.0
      end_time = 0.00125 # same as dt used in the analysis
   [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
    static_initialization = True
    use_displaced_mesh = True
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '5000'
     direction = '0 0 1'
     execute_on = initial
  [../]
[]

[Materials]
   [./elasticity_tensor]
      type = ComputeIsotropicElasticityTensorSoil
      block = 0
      layer_variable = layer_id
      layer_ids = 0
      poissons_ratio = 0.33
      density = 4.9419e-3
      shear_modulus = 68322.
   [../]
   [./stress1]
     #Computes the stress, using linear elasticity
     type = ComputeLinearElasticStress
     block = 0
    [../]
    [./strain1]
      #Computes the strain, assuming small strains
      type = ComputeSmallStrain
      block = 0
      displacements = 'disp_x disp_y disp_z'
  [../]
[]

[BCs]
  [./SeismicForce]
    [./top_stress]
      displacements = 'disp_x disp_y disp_z'
      input_components = '2'
      boundary = 'front'
      velocity_functions = 'z_vel'
      shear_wave_speed = 3718.204815052883833
      p_wave_speed = 7381.527628151251754
      density = 4.9419e-3
    [../]
  [../]
  [./NonReflectingBC]
    [./back]
      displacements = 'disp_x disp_y disp_z'
      velocities = 'vel_x vel_y vel_z'
      accelerations = 'accel_x accel_y accel_z'
      beta = 0.25
      gamma = 0.5
      boundary = 'back'
      shear_wave_speed = 3718.204815052883833
      p_wave_speed = 7381.527628151251754
      density = 4.9419e-3
    [../]
  [../]
  [./Periodic]
    [./x_dir]
      primary = 'left'
      secondary = 'right'
      translation = '25.0 0.0 0.0'
    [../]
    [./y_dir]
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 25.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./z_vel]
    type = PiecewiseLinear
    data_file = 'vel_wav_00125.csv'
    format = columns
    scale_factor = -10.0
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-10
  nl_rel_tol = 1e-10
  l_tol = 1e-12
  start_time = 0
  end_time = 2.6
  dt = 0.1
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_top_x]
    type = PointValue
    point = '0 0 5000'
    variable = disp_x
  [../]
  [./disp_top_y]
    type = PointValue
    point = '0 0 5000'
    variable = disp_y
  [../]
  [./disp_top_z]
    type = PointValue
    point = '0 0 5000'
    variable = disp_z
  [../]
  [./vel_top_x]
    type = PointValue
    point = '0 0 5000'
    variable = vel_x
  [../]
  [./vel_top_y]
    type = PointValue
    point = '0 0 5000'
    variable = vel_y
  [../]
  [./vel_top_z]
    type = PointValue
    point = '0 0 5000'
    variable = vel_z
  [../]
  [./accel_top_x]
    type = PointValue
    point = '0 0 5000'
    variable = accel_x
  [../]
  [./accel_top_y]
    type = PointValue
    point = '0 0 5000'
    variable = accel_y
  [../]
  [./accel_top_z]
    type = PointValue
    point = '0 0 5000'
    variable = accel_z
  [../]
[]

[Outputs]
   exodus = true
   csv = true
   perf_graph = true
   [./screen]
     type = Console
     max_rows = 1
   [../]
[]

(test/tests/mastodonblock/outputs/stress_strain_output.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
  [./Outputs]
    stress_strain_output = true
  [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  inactive = 'stress_xx stress_yy stress_xy stress_zz stress_zx stress_yz strain_xx strain_yy strain_xy strain_zz strain_zx strain_yz'
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  inactive = 'stress_xx stress_yy stress_xy stress_zz stress_zx stress_yz strain_xx strain_yy strain_xy strain_zz strain_zx strain_yz'
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/mastodonblock/model/noaction_static.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
[]

[AuxKernels]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    boundary = 0
    variable = disp_x
    value = 0
  [../]
  [./y_bot]
    type = DirichletBC
    boundary = 0
    variable = disp_y
    value = 0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./x_top]
    type = FunctionDirichletBC
    boundary = 5
    variable = disp_x
    function = disp_top_x
  [../]
  [./y_top]
    type = FunctionDirichletBC
    boundary = 5
    variable = disp_y
    function = disp_top_y
  [../]
[]

[Functions]
  [./disp_top_x]
    type = PiecewiseLinear
    data_file = 'disp.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./disp_top_y]
    type = PiecewiseLinear
    data_file = 'disp.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.3'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_data_file_noaction.i)

#@requirement F4.2
# One element test to test the user-defined  backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve is same as the one provided as input.

# This file DOES NOT use ISoilAction

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_displaced_mesh = false
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.85
    use_displaced_mesh = false
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layers]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./sample_isoil]
    type = ComputeISoilStress
    soil_type = 'user_defined'
    layer_variable = layer_id
    layer_ids = '0'
    backbone_curve_files = 'stress_strain_darendeli.csv'
    poissons_ratio = '0.3'
    initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
    initial_shear_modulus = '20155518.98'
  [../]
  [./sample_isoil_strain]
    type = ComputeIncrementalSmallStrain
    block = '0'
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./sample_isoil_elasticitytensor]
    type = ComputeIsotropicElasticityTensorSoil
    block = '0'
    shear_modulus = '20155518.98'
    poissons_ratio = '0.3'
    density = '2000'
    wave_speed_calculation = false
    layer_ids = '0'
    layer_variable = layer_id
  [../]

[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_GQH_AD.i)

# One element test to test the auto-generated GQ/H backbone curve.
# The back surface of the element (z=0) is fixed and the front surface (z=1)
# is moved by applying a cyclic preset displacement.

# The resulting shear stress-strain curve was verified against obtained from DEEPSOIL.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = 0
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = 0
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_1]
      soil_type = 'gqh'
      layer_variable = layer_id
      layer_ids = '0'
      theta_1 = '-2.28'
      theta_2 = '-5.54'
      theta_3 = '1.0'
      theta_4 = '1.0'
      theta_5 = '0.99'
      taumax = '7500'
      initial_shear_modulus = '20000000'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 0
      initial_soil_stress = '-4204.286 0 0  0 -4204.286 0  0 0 -9810'
      density = '2000'
      use_automatic_differentiation = true
    [../]
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in = 'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = NEWTON
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_check_jacobian'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/materials/isoil/HYS_thin_layer_AD.i)

# One element test to test the auto-generated thin_layer backbone curve for
# Coulomb friction. The top surface of the element (z=0) is fixed and the
# bottom surface (z=1) is moved by applying a cyclic preset displacement.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]


[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
  use_displaced_mesh = false
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.00006366
    use_automatic_differentiation = true
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 7.854
    density = 'reg_density'
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    density = 'reg_density'
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = ADRankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = ADRankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = ADRankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = DirichletBC
    variable = disp_x
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./y_bot]
    type = DirichletBC
    variable = disp_y
    boundary = '0 1 2 3 4'
    value = 0.0
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
  [./top_x]
    type = PresetDisplacement
    boundary = 5
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = top_disp
  [../]
[]

[Functions]
  [./top_disp]
    type = PiecewiseLinear
    data_file = Displacement2.csv
    format = columns
  [../]
[]

[Materials]
  [./I_Soil]
    [./soil_thin_layer]
      soil_type = 'thin_layer'
      layer_variable = layer_id
      layer_ids = '0'
      initial_shear_modulus = '20000'
      poissons_ratio = '0.45'
      block = 0
      density = '2.0'
      friction_coefficient = '0.7'
      hardening_ratio = '0.001'
      p_ref = '8.6209091'
      initial_soil_stress = '-8.0263636 0 0  0 -8.0263636 0  0 0 -9.810'
      use_automatic_differentiation = true
    [../]
  [../]
  [converter]
    type = MaterialConverter
    ad_props_in =  'density'
    reg_props_out = 'reg_density'
  []
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  start_time = 0
  end_time = 8
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  file_base = HYS_thin_layer_out
  exodus = true
  csv = true
  perf_graph = false
[]

(test/tests/vectorpostprocessors/housner_spectrum_intensity/housner_spectrum_intensity.i)

#@requirement F8.3
[Mesh]
  type = GeneratedMesh
  dim = 3
  nx = 1
  ny = 1
  nz = 4
  xmin = 0.0
  xmax = 1.0
  ymin = 0.0
  ymax = 1.0
  zmin = 0.0
  zmax = 4.0
[]

[Controls]
   [./period0]
      type = TimePeriod
      disable_objects = 'Kernels/inertia_x Kernels/inertia_y Kernels/inertia_z AuxKernels/accel_x AuxKernels/accel_y AuxKernels/accel_z AuxKernels/vel_x AuxKernels/vel_y AuxKernels/vel_z'
      start_time = 0.0
      end_time = 0.005 # same as dt used in the analysis
   [../]
[]

[Variables]
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    family = MONOMIAL
    order = CONSTANT
  [../]
[]

[Kernels]
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
    stiffness_damping_coefficient = 0.000781
    static_initialization = True
    use_displaced_mesh = True
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    eta = 0.64026
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = True
  [../]
  [./gravity]
    type = Gravity
    variable = disp_z
    value = -9.81
    use_displaced_mesh = True
  [../]
[]

[AuxKernels]
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 2
    index_j = 0
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 2
    index_j = 0
  [../]
  [./layer_id]
     type = UniformLayerAuxKernel
     variable = layer_id
     interfaces = '20'
     direction = '0 0 1'
     execute_on = initial
  [../]
[]

[Materials]
   [./elasticity_tensor]
      type = ComputeIsotropicElasticityTensorSoil
      block = 0
      layer_variable = layer_id
      layer_ids = '0'
      poissons_ratio = '0.3'
      density = '2000.0'
      shear_modulus = '325e7'
   [../]
   [./stress1]
     #Computes the stress, using linear elasticity
     type = ComputeLinearElasticStress
     block = 0
    [../]
    [./strain1]
      #Computes the strain, assuming small strains
      type = ComputeSmallStrain
      block = 0
      displacements = 'disp_x disp_y disp_z'
  [../]
[]

[BCs]
  [./bottom_accel_x]
    type = PresetAcceleration
    boundary = back
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./bottom_z]
    type = DirichletBC
    variable = disp_z
    boundary = back
    value = 0.0
  [../]
  [./bottom_accel_y]
    type = PresetAcceleration
    boundary = back
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./Periodic]
    [./x_dir]
      primary = 'left'
      secondary = 'right'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      primary = 'bottom'
      secondary = 'top'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-8
  nl_rel_tol = 1e-8
  l_tol = 1e-8
  start_time = 32
  end_time = 33
  dt = 0.005 # should be 0.005
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Outputs]
  [./out]
    type = CSV
    execute_on = 'final'
  [../]
[]

[VectorPostprocessors]
  [./accel_hist]
    type = ResponseHistoryBuilder
    variables = 'accel_x accel_y'
    nodes = '8 9'
  [../]
  [./accel_hsi]
    type = HousnerSpectrumIntensity
    vectorpostprocessor = accel_hist
    regularize_dt = 0.005
    outputs = out
  [../]
[]

(examples/ex06b/actual_simulation_isoil.i)

[Mesh]
  type = FileMesh
  file = ../ex06b/stabilize_isoil_out1_cp/LATEST #end file of previous simulation
  patch_update_strategy = iteration
  patch_size = 40
  partitioner = centroid
  centroid_partitioner_direction = y
[]

[Problem]
  restart_file_base = ../ex06b/stabilize_isoil_out1_cp/LATEST
[]

[GlobalParams]
  displacements = 'disp_x disp_y disp_z'
[]

[Variables]
  [disp_x]
  []
  [disp_y]
  []
  [disp_z]
  []
[]

[AuxVariables]
  [vel_x]
  []
  [accel_x]
  []
  [accel_y]
  []
  [vel_y]
  []
  [vel_z]
  []
  [accel_z]
  []
  [nor_forc]
    order = FIRST
    family = LAGRANGE
  []
  [tang_forc_x]
    order = FIRST
    family = LAGRANGE
  []
  [layer_id]
    order = CONSTANT
    family = MONOMIAL
  []
[]

[Kernels]
  [TensorMechanics]
    use_displaced_mesh = true
    displacements = 'disp_x disp_y disp_z'
  []
  [gravity]
    type = Gravity
    variable = disp_z
    value = -386.09 #in/s2
  []
  [inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    eta = 0.0
  []
  [inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    eta = 0.0
  []
  [inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    eta = 0.0
  []
[]

[AuxKernels]
  [nor_forc]
    type = PenetrationAux
    variable = nor_forc
    quantity = normal_force_magnitude
    boundary = 102
    paired_boundary = 103
  []
  [tang_forc_x]
    type = PenetrationAux
    variable = tang_forc_x
    quantity = tangential_force_x
    boundary = 102
    paired_boundary = 103
  []
  [accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  []
  [vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  []
  [accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  []
  [vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  []
  [accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  []
  [vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  []
  [layer_1]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '48'
    direction = '0.0 0.0 1.0'
    block = 1
    execute_on = initial
  []
[]

[BCs]
  [fix_x_soil]
    type = DirichletBC
    variable = disp_x
    boundary = 100
    value = 0.0
  []
  [fix_y_soil]
    type = DirichletBC
    variable = disp_y
    boundary = 100
    value = 0.0
  []
  [fix_z_soil]
    type = DirichletBC
    variable = disp_z
    boundary = 100
    value = 0.0
  []
  [concrete_pressure]
    type = Pressure
    boundary = 101
    variable = disp_z
    component = 2
    factor = 5 #psi
  []
  [top_x]
    type = PresetDisplacement
    boundary = 1000
    variable = disp_x
    beta = 0.25
    velocity = vel_x
    acceleration = accel_x
    function = loading_bc
  []
[]

[Functions]
  [loading_bc]
    type = PiecewiseLinear
    data_file = 'input_motion.csv'
    format = columns
  []
[]

[Materials]
  [elasticity_tensor_block]
    youngs_modulus = 4e6 #psi
    poissons_ratio = 0.25
    type = ComputeIsotropicElasticityTensor
    block = 2
  []
  [strain_block]
    type = ComputeFiniteStrain
    block = 2
    displacements = 'disp_x disp_y disp_z'
  []
  [stress_block]
    type = ComputeFiniteStrainElasticStress
    #  store_stress_old = true
    block = 2
  []
  [den_block]
    type = GenericConstantMaterial
    block = 2
    prop_names = density
    prop_values = 0.0002248 #slug/in^3
  []
  [I_Soil]
    [soil_1]
      soil_type = 'darendeli'
      layer_variable = layer_id
      layer_ids = '0'
      over_consolidation_ratio = '1'
      plasticity_index = '0'
      initial_shear_modulus = '7251'
      number_of_points = 10
      poissons_ratio = '0.3'
      block = 1
      density = '0.0001536'
      p_ref = '5'
      pressure_dependency = false
    []
  []
[]

[Contact]
  [leftright]
    secondary = 102
    primary = 103
    model = coulomb
    formulation = penalty
    normalize_penalty = true
    friction_coefficient = 0.2
    penalty = 1e4
    displacements = 'disp_x disp_y disp_z'
  []
[]

[Preconditioning]
  [andy]
    type = SMP
    full = true
  []
[]

[Postprocessors]
  [nor_forc]
    type = NodalSum
    variable = nor_forc
    boundary = 102
  []
  [tang_forc_x]
    type = NodalSum
    variable = tang_forc_x
    boundary = 102
  []
  [dispx]
    type = NodalExtremeValue
    value_type = max
    block = '2'
    variable = disp_x
  []
[]

[Executioner]
  type = Transient
  solve_type = 'PJFNK'
  petsc_options_iname = '-pc_type -pc_factor_mat_solver_package'
  petsc_options_value = 'lu     superlu_dist'
  line_search = 'none'
  start_time = 0
  end_time = 2.5
  dt = 0.005
  dtmin = 0.001
  nl_abs_tol = 1e-1
  nl_rel_tol = 1e-4
  l_tol = 1e-2
  l_max_its = 20
  timestep_tolerance = 1e-3
[]

[Outputs]
  csv = true
  exodus = true
  file_base = finalresult
  print_linear_residuals = false
  [screen]
    type = Console
    max_rows = 1
  []
[]

(test/tests/mastodonblock/model/model_dynamic.i)

# One element model to test Mastodon Actions. Periodic boundary conditions are
# applied and an acceleration is prescribed at the bottom surface.

[Mesh]
  type = GeneratedMesh # Can generate simple lines, rectangles and rectangular prisms
  dim = 3 # Dimension of the mesh
  nx = 1 # Number of elements in the x direction
  ny = 1 # Number of elements in the y direction
  nz = 1 # Number of elements in the z direction
  xmin = 0.0
  xmax = 1
  ymin = 0.0
  ymax = 1
  zmin = 0.0
  zmax = 1
[]

[Mastodon]
  [./Model]
    dynamic_analysis = true
    eta = 0.64026
    zeta = 0.000781
  [../]
[]

[Variables]
  inactive = 'disp_x disp_y disp_z'
  [./disp_x]
  [../]
  [./disp_y]
  [../]
  [./disp_z]
  [../]
[]

[AuxVariables]
  inactive = 'accel_x vel_x accel_y vel_y accel_z vel_z'
  [./vel_x]
  [../]
  [./accel_x]
  [../]
  [./vel_y]
  [../]
  [./accel_y]
  [../]
  [./vel_z]
  [../]
  [./accel_z]
  [../]
  [./stress_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./stress_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_xx]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_yy]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./strain_zz]
    order = CONSTANT
    family = MONOMIAL
  [../]
  [./layer_id]
    order = CONSTANT
    family = MONOMIAL
  [../]
[]

[Kernels]
  inactive = 'DynamicTensorMechanics inertia_x inertia_y inertia_z'
  [./DynamicTensorMechanics]
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./inertia_x]
    type = InertialForce
    variable = disp_x
    velocity = vel_x
    acceleration = accel_x
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_y]
    type = InertialForce
    variable = disp_y
    velocity = vel_y
    acceleration = accel_y
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
  [./inertia_z]
    type = InertialForce
    variable = disp_z
    velocity = vel_z
    acceleration = accel_z
    beta = 0.25
    gamma = 0.5
    use_displaced_mesh = false
  [../]
[]

[AuxKernels]
  inactive = 'accel_x vel_x accel_y vel_y accel_z vel_z'
  [./accel_x]
    type = NewmarkAccelAux
    variable = accel_x
    displacement = disp_x
    velocity = vel_x
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_x]
    type = NewmarkVelAux
    variable = vel_x
    acceleration = accel_x
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_y]
    type = NewmarkAccelAux
    variable = accel_y
    displacement = disp_y
    velocity = vel_y
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_y]
    type = NewmarkVelAux
    variable = vel_y
    acceleration = accel_y
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./accel_z]
    type = NewmarkAccelAux
    variable = accel_z
    displacement = disp_z
    velocity = vel_z
    beta = 0.25
    execute_on = timestep_end
  [../]
  [./vel_z]
    type = NewmarkVelAux
    variable = vel_z
    acceleration = accel_z
    gamma = 0.5
    execute_on = timestep_end
  [../]
  [./stress_xy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./stress_yz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yz
    index_i = 2
    index_j = 1
  [../]
  [./stress_zx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zx
    index_i = 0
    index_j = 2
  [../]
  [./strain_xy]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = stress_xy
    index_i = 1
    index_j = 0
  [../]
  [./strain_yz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_yz
    index_i = 2
    index_j = 1
  [../]
  [./strain_zx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zx
    index_i = 0
    index_j = 2
  [../]
  [./stress_xx]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_xx
    index_i = 0
    index_j = 0
  [../]
  [./stress_yy]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_yy
    index_i = 1
    index_j = 1
  [../]
  [./stress_zz]
    type = RankTwoAux
    rank_two_tensor = stress
    variable = stress_zz
    index_i = 2
    index_j = 2
  [../]
  [./strain_xx]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_xx
    index_i = 0
    index_j = 0
  [../]
  [./strain_yy]
    type = RankTwoAux
    rank_two_tensor =total_strain
    variable = strain_yy
    index_i = 1
    index_j = 1
  [../]
  [./strain_zz]
    type = RankTwoAux
    rank_two_tensor = total_strain
    variable = strain_zz
    index_i = 2
    index_j = 2
  [../]
  [./layer]
    type = UniformLayerAuxKernel
    variable = layer_id
    interfaces = '2.0'
    direction = '0 0 1'
    execute_on = initial
  [../]
[]

[BCs]
  [./x_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_x
    variable = disp_x
    beta = 0.25
    acceleration = accel_x
    velocity = vel_x
  [../]
  [./y_bot]
    type = PresetAcceleration
    boundary = 0
    function = accel_bottom_y
    variable = disp_y
    beta = 0.25
    acceleration = accel_y
    velocity = vel_y
  [../]
  [./z_bot]
    type = DirichletBC
    variable = disp_z
    boundary = 0
    value = 0.0
  [../]
  [./Periodic]
    [./x_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '4'
      secondary = '2'
      translation = '1.0 0.0 0.0'
    [../]
    [./y_dir]
      variable = 'disp_x disp_y disp_z'
      primary = '1'
      secondary = '3'
      translation = '0.0 1.0 0.0'
    [../]
  [../]
[]

[Functions]
  [./accel_bottom_x]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 1.0
  [../]
  [./accel_bottom_y]
    type = PiecewiseLinear
    data_file = 'accel.csv'
    format = columns
    scale_factor = 2.0
  [../]
[]

[Materials]
  [./Elasticity_tensor_1]
    type = ComputeIsotropicElasticityTensorSoil
    block = 0
    layer_variable = layer_id
    layer_ids = '0'
    shear_modulus = '1.0e+2'
    poissons_ratio = '0.2'
    density = '1.0'
  [../]
  [./strain_1]
    type = ComputeSmallStrain
    block = 0
    displacements = 'disp_x disp_y disp_z'
  [../]
  [./stress_1]
    type = ComputeLinearElasticStress
    block = 0
  [../]
[]

[Preconditioning]
  [./andy]
    type = SMP
    full = true
  [../]
[]

[Executioner]
  type = Transient
  solve_type = PJFNK
  nl_abs_tol = 1e-11
  nl_rel_tol = 1e-11
  start_time = 32
  end_time = 33
  dt = 0.01
  timestep_tolerance = 1e-6
  petsc_options = '-snes_ksp_ew'
  petsc_options_iname = '-ksp_gmres_restart -pc_type -pc_hypre_type -pc_hypre_boomeramg_max_iter'
  petsc_options_value = '201                hypre    boomeramg      4'
  line_search = 'none'
[]

[Postprocessors]
  [./_dt]
    type = TimestepSize
  [../]
  [./disp_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_x
  [../]
  [./disp_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_y
  [../]
  [./disp_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = disp_z
  [../]
  [./vel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_x
  [../]
  [./vel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_y
  [../]
  [./vel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = vel_z
  [../]
  [./accel_6x]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_x
  [../]
  [./accel_6y]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_y
  [../]
  [./accel_6z]
    type = NodalVariableValue
    nodeid = 6
    variable = accel_z
  [../]
  [./stress_xy_el]
    type = ElementalVariableValue
    variable = stress_xy
    elementid = 0
  [../]
  [./stress_yz_el]
    type = ElementalVariableValue
    variable = stress_yz
    elementid = 0
  [../]
  [./stress_zx_el]
    type = ElementalVariableValue
    variable = stress_zx
    elementid = 0
  [../]
  [./strain_xy_el]
    type = ElementalVariableValue
    variable = strain_xy
    elementid = 0
  [../]
  [./strain_yz_el]
    type = ElementalVariableValue
    variable = strain_yz
    elementid = 0
  [../]
  [./strain_zx_el]
    type = ElementalVariableValue
    variable = strain_zx
    elementid = 0
  [../]
  [./stress_xx_el]
    type = ElementalVariableValue
    variable = stress_xx
    elementid = 0
  [../]
  [./stress_yy_el]
    type = ElementalVariableValue
    variable = stress_yy
    elementid = 0
  [../]
  [./stress_zz_el]
    type = ElementalVariableValue
    variable = stress_zz
    elementid = 0
  [../]
  [./strain_xx_el]
    type = ElementalVariableValue
    variable = strain_xx
    elementid = 0
  [../]
  [./strain_yy_el]
    type = ElementalVariableValue
    variable = strain_yy
    elementid = 0
  [../]
  [./strain_zz_el]
    type = ElementalVariableValue
    variable = strain_zz
    elementid = 0
  [../]
[]

[Outputs]
  exodus = true
  csv = true
  perf_graph = false
[]

Description
Input Parameters
Input Files

Usage

Development

Demonstration