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Commit ef5232c9 authored by garibay-j's avatar garibay-j Committed by renchao.lu
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[T] add validation test

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Tests/Data/Parabolic/ComponentTransport/ReactiveTransport/EquilibriumPhase/calcitePorosityChange.prj 0 → 100644
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<?xml version="1.0" encoding="ISO-8859-1"?>
<OpenGeoSysProject>
<meshes>
<mesh>calcite.vtu</mesh>
<mesh>calcite_upstream.vtu</mesh>
<mesh>calcite_downstream.vtu</mesh>
<mesh>calcite_ReactiveDomain.vtu</mesh>
</meshes>
<processes>
<process>
<name>hc</name>
<type>ComponentTransport</type>
<integration_order>2</integration_order>
<coupling_scheme>staggered</coupling_scheme>
<process_variables>
<concentration>C(4)</concentration>
<concentration>Ca</concentration>
<concentration>Mg</concentration>
<concentration>Cl</concentration>
<concentration>H</concentration>
<pressure>pressure</pressure>
</process_variables>
<specific_body_force>0 0</specific_body_force>
<chemically_induced_porosity_change>true</chemically_induced_porosity_change>
<secondary_variables>
<secondary_variable internal_name="darcy_velocity" output_name="darcy_velocity"/>
</secondary_variables>
</process>
</processes>
<media>
<medium id="0">
<phases>
<phase>
<type>AqueousLiquid</type>
<components>
<component>
<name>C(4)</name>
<properties>
<property>
<name>pore_diffusion</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>retardation_factor</name>
<type>Constant</type>
<value>1</value>
</property>
<property>
<name>decay_rate</name>
<type>Parameter</type>
<parameter_name>decay</parameter_name>
</property>
</properties>
</component>
<component>
<name>Ca</name>
<properties>
<property>
<name>pore_diffusion</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>retardation_factor</name>
<type>Constant</type>
<value>1</value>
</property>
<property>
<name>decay_rate</name>
<type>Parameter</type>
<parameter_name>decay</parameter_name>
</property>
</properties>
</component>
<component>
<name>Mg</name>
<properties>
<property>
<name>pore_diffusion</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>retardation_factor</name>
<type>Constant</type>
<value>1</value>
</property>
<property>
<name>decay_rate</name>
<type>Parameter</type>
<parameter_name>decay</parameter_name>
</property>
</properties>
</component>
<component>
<name>Cl</name>
<properties>
<property>
<name>pore_diffusion</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>retardation_factor</name>
<type>Constant</type>
<value>1</value>
</property>
<property>
<name>decay_rate</name>
<type>Parameter</type>
<parameter_name>decay</parameter_name>
</property>
</properties>
</component>
<component>
<name>H</name>
<properties>
<property>
<name>pore_diffusion</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>retardation_factor</name>
<type>Constant</type>
<value>1</value>
</property>
<property>
<name>decay_rate</name>
<type>Parameter</type>
<parameter_name>decay</parameter_name>
</property>
</properties>
</component>
</components>
<properties>
<property>
<name>density</name>
<type>Constant</type>
<value>1e3</value>
</property>
<property>
<name>viscosity</name>
<type>Constant</type>
<value>1e-3</value>
</property>
</properties>
</phase>
<phase>
<type>Solid</type>
<components>
<component>
<name>Calcite</name>
<properties>
<property>
<name>volume_fraction</name>
<type>Constant</type>
<value>2.446e-6</value>
</property>
<property>
<name>molar_volume</name>
<type>Constant</type>
<value>3.6934e-5</value>
</property>
</properties>
</component>
<component>
<name>Dolomite(dis)</name>
<properties>
<property>
<name>volume_fraction</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>molar_volume</name>
<type>Constant</type>
<value>6.439e-5</value>
</property>
</properties>
</component>
</components>
</phase>
</phases>
<properties>
<property>
<name>permeability</name>
<type>Parameter</type>
<parameter_name>kappa</parameter_name>
</property>
<property>
<name>porosity</name>
<type>Parameter</type>
<parameter_name>porosity</parameter_name>
</property>
<property>
<name>longitudinal_dispersivity</name>
<type>Constant</type>
<value>0.0067</value>
</property>
<property>
<name>transversal_dispersivity</name>
<type>Constant</type>
<value>0.1</value>
</property>
</properties>
</medium>
</media>
<time_loop>
<global_process_coupling>
<max_iter>6</max_iter>
<convergence_criteria>
<!-- convergence criterion for the first process (p) -->
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<!-- convergence criterion for the second process (C(4)) -->
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<!-- convergence criterion for the second process (Ca) -->
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<!-- convergence criterion for the second process (Mg) -->
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<!-- convergence criterion for the second process (Cl) -->
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<!-- convergence criterion for the second process (H) -->
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
</convergence_criteria>
</global_process_coupling>
<processes>
<!-- convergence criterion for hydraulic equation -->
<process ref="hc">
<nonlinear_solver>basic_picard</nonlinear_solver>
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0.0</t_initial>
<t_end>21000</t_end>
<timesteps>
<pair>
<repeat>210</repeat>
<delta_t>100</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
<!-- convergence criterion for component transport equation (C(4)) -->
<process ref="hc">
<nonlinear_solver>basic_picard</nonlinear_solver>
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0.0</t_initial>
<t_end>21000</t_end>
<timesteps>
<pair>
<repeat>210</repeat>
<delta_t>100</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
<!-- convergence criterion for component transport equation (Ca) -->
<process ref="hc">
<nonlinear_solver>basic_picard</nonlinear_solver>
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0.0</t_initial>
<t_end>21000</t_end>
<timesteps>
<pair>
<repeat>210</repeat>
<delta_t>100</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
<!-- convergence criterion for component transport equation (Mg) -->
<process ref="hc">
<nonlinear_solver>basic_picard</nonlinear_solver>
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0.0</t_initial>
<t_end>21000</t_end>
<timesteps>
<pair>
<repeat>210</repeat>
<delta_t>100</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
<!-- convergence criterion for component transport equation (Cl) -->
<process ref="hc">
<nonlinear_solver>basic_picard</nonlinear_solver>
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0.0</t_initial>
<t_end>21000</t_end>
<timesteps>
<pair>
<repeat>210</repeat>
<delta_t>100</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
<!-- convergence criterion for component transport equation (H) -->
<process ref="hc">
<nonlinear_solver>basic_picard</nonlinear_solver>
<convergence_criterion>
<type>DeltaX</type>
<norm_type>NORM2</norm_type>
<reltol>1e-14</reltol>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0.0</t_initial>
<t_end>21000</t_end>
<timesteps>
<pair>
<repeat>210</repeat>
<delta_t>100</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
</processes>
<output>
<type>VTK</type>
<prefix>calcitePorosityChange</prefix>
<suffix>_ts_{:timestep}_t_{:time}</suffix>
<timesteps>
<pair>
<repeat>5</repeat>
<each_steps>42</each_steps>
</pair>
</timesteps>
<variables>
<variable>C(4)</variable>
<variable>Ca</variable>
<variable>Mg</variable>
<variable>Cl</variable>
<variable>H</variable>
<variable>pressure</variable>
<variable>darcy_velocity</variable>
</variables>
</output>
</time_loop>
<chemical_system chemical_solver="Phreeqc">
<mesh>calcite_ReactiveDomain</mesh>
<database>PSINA_12_07_110615_DAV_s.dat</database>
<solution>
<temperature>25</temperature>
<pressure>1</pressure>
<pe>4</pe>
<components>
<component>C(4)</component>
<component>Ca</component>
<component>Mg</component>
<component>Cl</component>
</components>
<charge_balance>pH</charge_balance>
</solution>
<equilibrium_reactants>
<phase_component>
<name>Calcite</name>
<saturation_index>0.0</saturation_index>
</phase_component>
<phase_component>
<name>Dolomite(dis)</name>
<saturation_index>0.0</saturation_index>
</phase_component>
</equilibrium_reactants>
<knobs>
<max_iter>100</max_iter>
<relative_convergence_tolerance>1e-12</relative_convergence_tolerance>
<tolerance>1e-15</tolerance>
<step_size>100</step_size>
<scaling>0</scaling>
</knobs>
</chemical_system>
<parameters>
<parameter>
<name>kappa</name>
<type>Constant</type>
<values>1.157e-12</values>
</parameter>
<parameter>
<name>porosity</name>
<type>Constant</type>
<value>0.32</value>
</parameter>
<parameter>
<name>decay</name>
<type>Constant</type>
<value>0</value>
</parameter>
<parameter>
<name>p0</name>
<type>Constant</type>
<value>1</value>
</parameter>
<parameter>
<name>p_upstream</name>
<type>Constant</type>
<value>1e5</value>
</parameter>
<parameter>
<name>p_downstream_Neumann</name>
<type>Constant</type>
<value>-2.9976852e-3</value>
</parameter>
<parameter>
<name>c0_C(4)</name>
<type>Constant</type>
<value>1.23e-4</value>
</parameter>
<parameter>
<name>c0_Ca</name>
<type>Constant</type>
<value>1.23e-4</value>
</parameter>
<parameter>
<name>c0_Mg</name>
<type>Constant</type>
<value>1e-12</value>
</parameter>
<parameter>
<name>c0_Cl</name>
<type>Constant</type>
<value>1e-12</value>
</parameter>
<parameter>
<name>c0_H</name>
<type>Constant</type>
<!--pH=9.91-->
<value>1.2302687708123812e-10</value>
</parameter>
<parameter>
<name>c_C(4)</name>
<type>Constant</type>
<value>1e-10</value>
</parameter>
<parameter>
<name>c_Ca</name>
<type>Constant</type>
<value>1e-10</value>
</parameter>
<parameter>
<name>c_Mg</name>
<type>Constant</type>
<value>1e-3</value>
</parameter>
<parameter>
<name>c_Cl</name>
<type>Constant</type>
<value>2e-3</value>
</parameter>
<parameter>
<name>c_H</name>
<type>Constant</type>
<!--pH=7-->
<value>1e-7</value>
</parameter>
</parameters>
<process_variables>
<process_variable>
<name>pressure</name>
<components>1</components>
<order>1</order>
<initial_condition>p0</initial_condition>
<boundary_conditions>
<boundary_condition>
<mesh>calcite_upstream</mesh>
<type>Dirichlet</type>
<parameter>p_upstream</parameter>
</boundary_condition>
<boundary_condition>
<mesh>calcite_downstream</mesh>
<type>Neumann</type>
<parameter>p_downstream_Neumann</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>C(4)</name>
<components>1</components>
<order>1</order>
<initial_condition>c0_C(4)</initial_condition>
<boundary_conditions>
<boundary_condition>
<mesh>calcite_upstream</mesh>
<type>Dirichlet</type>
<parameter>c_C(4)</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>Ca</name>
<components>1</components>
<order>1</order>
<initial_condition>c0_Ca</initial_condition>
<boundary_conditions>
<boundary_condition>
<mesh>calcite_upstream</mesh>
<type>Dirichlet</type>
<parameter>c_Ca</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>Mg</name>
<components>1</components>
<order>1</order>
<initial_condition>c0_Mg</initial_condition>
<boundary_conditions>
<boundary_condition>
<mesh>calcite_upstream</mesh>
<type>Dirichlet</type>
<parameter>c_Mg</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>Cl</name>
<components>1</components>
<order>1</order>
<initial_condition>c0_Cl</initial_condition>
<boundary_conditions>
<boundary_condition>
<mesh>calcite_upstream</mesh>
<type>Dirichlet</type>
<parameter>c_Cl</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>H</name>
<components>1</components>
<order>1</order>
<initial_condition>c0_H</initial_condition>
<boundary_conditions>
<boundary_condition>
<mesh>calcite_upstream</mesh>
<type>Dirichlet</type>
<parameter>c_H</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
</process_variables>
<nonlinear_solvers>
<nonlinear_solver>
<name>basic_picard</name>
<type>Picard</type>
<max_iter>10</max_iter>
<linear_solver>general_linear_solver</linear_solver>
</nonlinear_solver>
</nonlinear_solvers>
<linear_solvers>
<linear_solver>
<name>general_linear_solver</name>
<lis>-i cg -p jacobi -tol 1e-16 -maxiter 20000</lis>
<eigen>
<solver_type>BiCGSTAB</solver_type>
<precon_type>ILUT</precon_type>
<max_iteration_step>10000</max_iteration_step>
<error_tolerance>1e-14</error_tolerance>
</eigen>
<petsc>
<prefix>hc</prefix>
<parameters>-hc_ksp_type bcgs -hc_pc_type bjacobi -hc_ksp_rtol 1e-8 -hc_ksp_max_it 20000</parameters>
</petsc>
</linear_solver>
</linear_solvers>
<test_definition>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>pressure</field>
<absolute_tolerance>1e-6</absolute_tolerance>
<relative_tolerance>1e-10</relative_tolerance>
</vtkdiff>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>Ca</field>
<absolute_tolerance>1e-10</absolute_tolerance>
<relative_tolerance>1e-16</relative_tolerance>
</vtkdiff>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>Cl</field>
<absolute_tolerance>1e-10</absolute_tolerance>
<relative_tolerance>1e-16</relative_tolerance>
</vtkdiff>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>H</field>
<absolute_tolerance>1e-10</absolute_tolerance>
<relative_tolerance>1e-16</relative_tolerance>
</vtkdiff>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>Mg</field>
<absolute_tolerance>1e-10</absolute_tolerance>
<relative_tolerance>1e-16</relative_tolerance>
</vtkdiff>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>Calcite_avg</field>
<absolute_tolerance>1e-10</absolute_tolerance>
<relative_tolerance>1e-16</relative_tolerance>
</vtkdiff>
<vtkdiff>
<regex>calcitePorosityChange_ts_[0-9]*_t_[0-9]*.000000.vtu</regex>
<field>Dolomite(dis)_avg</field>
<absolute_tolerance>1e-10</absolute_tolerance>
<relative_tolerance>1e-16</relative_tolerance>
</vtkdiff>
</test_definition>
</OpenGeoSysProject>
Tests/Data/Parabolic/ComponentTransport/ReactiveTransport/EquilibriumPhase/calcitePorosityChange_ts_0_t_0.000000.vtu 0 → 100644
+ 45
− 0
View file @ ef5232c9
<?xml version="1.0"?>
<VTKFile type="UnstructuredGrid" version="1.0" byte_order="LittleEndian" header_type="UInt64" compressor="vtkZLibDataCompressor">
<UnstructuredGrid>
<FieldData>
<DataArray type="Float64" Name="Calcite" NumberOfTuples="200" format="appended" RangeMin="0.00020719917662" RangeMax="0.00020719917662" offset="0" />
<DataArray type="Float64" Name="Calcite_prev" NumberOfTuples="200" format="appended" RangeMin="0.00020695700439" RangeMax="0.00020695700439" offset="84" />
<DataArray type="Float64" Name="Dolomite(dis)" NumberOfTuples="200" format="appended" RangeMin="0" RangeMax="0" offset="168" />
<DataArray type="Float64" Name="Dolomite(dis)_prev" NumberOfTuples="200" format="appended" RangeMin="0" RangeMax="0" offset="240" />
<DataArray type="Int8" Name="OGS_VERSION" NumberOfTuples="21" format="appended" RangeMin="45" RangeMax="103" offset="312" />
<DataArray type="Float64" Name="pe" NumberOfTuples="200" format="appended" RangeMin="7.9018480282" RangeMax="7.9018554854" offset="392" />
<DataArray type="Float64" Name="phi_Calcite" NumberOfTuples="200" format="appended" RangeMin="2.4488622045e-06" RangeMax="2.4488622045e-06" offset="484" />
<DataArray type="Float64" Name="phi_Calcite_prev" NumberOfTuples="200" format="appended" RangeMin="2.446e-06" RangeMax="2.446e-06" offset="568" />
<DataArray type="Float64" Name="phi_Dolomite(dis)" NumberOfTuples="200" format="appended" RangeMin="0" RangeMax="0" offset="652" />
<DataArray type="Float64" Name="phi_Dolomite(dis)_prev" NumberOfTuples="200" format="appended" RangeMin="0" RangeMax="0" offset="724" />
</FieldData>
<Piece NumberOfPoints="101" NumberOfCells="100" >
<PointData>
<DataArray type="Float64" Name="C(4)" format="appended" RangeMin="0.00012275782751" RangeMax="0.00012275782751" offset="796" />
<DataArray type="Float64" Name="Ca" format="appended" RangeMin="0.00012275782751" RangeMax="0.00012275782751" offset="872" />
<DataArray type="Float64" Name="Cl" format="appended" RangeMin="9.9999999786e-13" RangeMax="9.9999999786e-13" offset="948" />
<DataArray type="Float64" Name="H" format="appended" RangeMin="1.230841961e-10" RangeMax="1.230841961e-10" offset="1024" />
<DataArray type="Float64" Name="Mg" format="appended" RangeMin="9.9999999786e-13" RangeMax="9.9999999786e-13" offset="1104" />
<DataArray type="Float64" Name="darcy_velocity" format="appended" RangeMin="0" RangeMax="0" offset="1180" />
<DataArray type="Float64" Name="pressure" format="appended" RangeMin="1" RangeMax="1" offset="1248" />
</PointData>
<CellData>
<DataArray type="Float64" Name="Calcite_avg" format="appended" RangeMin="0.00020719917662" RangeMax="0.00020719917662" offset="1320" />
<DataArray type="Float64" Name="Dolomite(dis)_avg" format="appended" RangeMin="0" RangeMax="0" offset="1396" />
<DataArray type="Int32" Name="MaterialIDs" format="appended" RangeMin="0" RangeMax="0" offset="1464" />
<DataArray type="Float64" Name="velocity" format="appended" RangeMin="0" RangeMax="0" offset="1528" />
</CellData>
<Points>
<DataArray type="Float64" Name="Points" NumberOfComponents="3" format="appended" RangeMin="0" RangeMax="0.5" offset="1596" />
</Points>
<Cells>
<DataArray type="Int64" Name="connectivity" format="appended" RangeMin="" RangeMax="" offset="2524" />
<DataArray type="Int64" Name="offsets" format="appended" RangeMin="" RangeMax="" offset="2824" />
<DataArray type="UInt8" Name="types" format="appended" RangeMin="" RangeMax="" offset="3136" />
</Cells>
</Piece>
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Tests/Data/Parabolic/ComponentTransport/ReactiveTransport/EquilibriumPhase/calcitePorosityChange_ts_42_t_4200.000000.vtu 0 → 100644
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Tests/Data/Parabolic/ComponentTransport/ReactiveTransport/EquilibriumPhase/calcitePorosityChange_ts_84_t_8400.000000.vtu 0 → 100644
+ 45
− 0
View file @ ef5232c9
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