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Commit e955efaf authored by Johannes Boog's avatar Johannes Boog
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[benchmark] add bm with top-level include tag

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1 merge request!55[base] update package to OGS6.4.2
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inst/extdata/benchmarks/OrthotropicEmbeddedFracturePermeability/cube_1x1x1.gml 0 → 100644
+ 95
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<?xml version="1.0" encoding="ISO-8859-1"?>
<?xml-stylesheet type="text/xsl" href="OpenGeoSysGLI.xsl"?>
<OpenGeoSysGLI xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:ogs="http://www.opengeosys.org">
<name>cube_1x1x1_geometry</name>
<points>
<point id="0" x="0" y="0" z="0" name="origin"/>
<point id="1" x="0" y="0" z="1"/>
<point id="2" x="0" y="1" z="1"/>
<point id="3" x="0" y="1" z="0"/>
<point id="4" x="1" y="0" z="0"/>
<point id="5" x="1" y="0" z="1"/>
<point id="6" x="1" y="1" z="1"/>
<point id="7" x="1" y="1" z="0"/>
</points>
<polylines>
<polyline id="0" name="front_left">
<pnt>0</pnt>
<pnt>1</pnt>
</polyline>
<polyline id="1" name="front_right">
<pnt>4</pnt>
<pnt>5</pnt>
</polyline>
<polyline id="2" name="front_bottom">
<pnt>0</pnt>
<pnt>4</pnt>
</polyline>
<polyline id="3" name="front_top">
<pnt>1</pnt>
<pnt>5</pnt>
</polyline>
<polyline id="4" name="bottom_left">
<pnt>0</pnt>
<pnt>3</pnt>
</polyline>
<polyline id="5" name="bottom_right">
<pnt>4</pnt>
<pnt>7</pnt>
</polyline>
<polyline id="6" name="top_left">
<pnt>1</pnt>
<pnt>2</pnt>
</polyline>
<polyline id="7" name="top_right">
<pnt>5</pnt>
<pnt>6</pnt>
</polyline>
<polyline id="8" name="back_left">
<pnt>2</pnt>
<pnt>3</pnt>
</polyline>
<polyline id="9" name="back_right">
<pnt>6</pnt>
<pnt>7</pnt>
</polyline>
<polyline id="10" name="back_bottom">
<pnt>3</pnt>
<pnt>7</pnt>
</polyline>
<polyline id="11" name="back_top">
<pnt>2</pnt>
<pnt>6</pnt>
</polyline>
</polylines>
<surfaces>
<surface id="0" name="left"><!-- x=0 -->
<element p1="0" p2="1" p3="2"/>
<element p1="0" p2="3" p3="2"/>
</surface>
<surface id="1" name="right"><!-- x=1 -->
<element p1="4" p2="6" p3="5"/>
<element p1="4" p2="6" p3="7"/>
</surface>
<surface id="2" name="top"><!-- z=1 -->
<element p1="1" p2="2" p3="5"/>
<element p1="5" p2="2" p3="6"/>
</surface>
<surface id="3" name="bottom"><!-- z=0 -->
<element p1="0" p2="3" p3="4"/>
<element p1="4" p2="3" p3="7"/>
</surface>
<surface id="4" name="front"><!-- y=0 -->
<element p1="0" p2="1" p3="4"/>
<element p1="4" p2="1" p3="5"/>
</surface>
<surface id="5" name="back"><!-- y=1 -->
<element p1="2" p2="3" p3="6"/>
<element p1="6" p2="3" p3="7"/>
</surface>
</surfaces>
</OpenGeoSysGLI>
inst/extdata/benchmarks/OrthotropicEmbeddedFracturePermeability/cube_1x1x1_quad.vtu 0 → 100644
+ 22
− 0
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<?xml version="1.0"?>
<VTKFile type="UnstructuredGrid" version="0.1" byte_order="LittleEndian" header_type="UInt32">
<UnstructuredGrid>
<Piece NumberOfPoints="20" NumberOfCells="1" >
<PointData>
</PointData>
<CellData>
</CellData>
<Points>
<DataArray type="Float64" Name="Points" NumberOfComponents="3" format="appended" RangeMin="0" RangeMax="1.7320508076" offset="0" />
</Points>
<Cells>
<DataArray type="Int64" Name="connectivity" format="appended" RangeMin="" RangeMax="" offset="648" />
<DataArray type="Int64" Name="offsets" format="appended" RangeMin="" RangeMax="" offset="868" />
<DataArray type="UInt8" Name="types" format="appended" RangeMin="" RangeMax="" offset="884" />
</Cells>
</Piece>
</UnstructuredGrid>
<AppendedData encoding="base64">
_4AEAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAPA/AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA8D8AAAAAAAAAAAAAAAAAAPA/AAAAAAAA8D8AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAADwPwAAAAAAAPA/AAAAAAAAAAAAAAAAAADwPwAAAAAAAAAAAAAAAAAA8D8AAAAAAADwPwAAAAAAAPA/AAAAAAAA8D8AAAAAAADwPwAAAAAAAAAAAAAAAAAAAAAAAAAAAADgPwAAAAAAAAAAAAAAAAAA4D8AAAAAAAAAAAAAAAAAAAAAAAAAAAAA4D8AAAAAAADwPwAAAAAAAAAAAAAAAAAA8D8AAAAAAADgPwAAAAAAAOA/AAAAAAAAAAAAAAAAAAAAAAAAAAAAAOA/AAAAAAAAAAAAAAAAAADwPwAAAAAAAOA/AAAAAAAA8D8AAAAAAAAAAAAAAAAAAOA/AAAAAAAA8D8AAAAAAADwPwAAAAAAAPA/AAAAAAAAAAAAAAAAAADgPwAAAAAAAPA/AAAAAAAA4D8AAAAAAAAAAAAAAAAAAPA/AAAAAAAA4D8AAAAAAADwPwAAAAAAAPA/AAAAAAAA8D8AAAAAAADgPw==oAAAAAAAAAAAAAAAAQAAAAAAAAADAAAAAAAAAAIAAAAAAAAABAAAAAAAAAAFAAAAAAAAAAcAAAAAAAAABgAAAAAAAAAMAAAAAAAAABEAAAAAAAAADgAAAAAAAAAJAAAAAAAAAA0AAAAAAAAAEgAAAAAAAAAPAAAAAAAAAAoAAAAAAAAACAAAAAAAAAAQAAAAAAAAABMAAAAAAAAACwAAAAAAAAA=CAAAABQAAAAAAAAAAQAAABk=
</AppendedData>
</VTKFile>
inst/extdata/benchmarks/OrthotropicEmbeddedFracturePermeability/cube_strain_flow_data.include 0 → 100644
+ 132
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<mesh>cube_1x1x1_quad.vtu</mesh>
<geometry>cube_1x1x1.gml</geometry>
<processes>
<process>
<name>HM</name>
<type>HYDRO_MECHANICS</type>
<integration_order>3</integration_order>
<dimension>3</dimension>
<constitutive_relation>
<type>LinearElasticIsotropic</type>
<youngs_modulus>E</youngs_modulus>
<poissons_ratio>nu</poissons_ratio>
</constitutive_relation>
<process_variables>
<displacement>displacement</displacement>
<pressure>pressure</pressure>
</process_variables>
<secondary_variables>
<secondary_variable internal_name="sigma" output_name="sigma"/>
<secondary_variable internal_name="epsilon" output_name="epsilon"/>
<secondary_variable internal_name="velocity" output_name="velocity"/>
</secondary_variables>
<specific_body_force>0 0 0</specific_body_force>
</process>
</processes>
<media>
<medium>
<phases>
<phase>
<type>Gas</type>
<properties>
<property>
<name>viscosity</name>
<type>Constant</type>
<value>1e-3</value>
</property>
<property>
<name>density</name>
<type>Constant</type>
<value>1</value>
</property>
</properties>
</phase>
<phase>
<type>Solid</type>
<properties>
<property>
<name>density</name>
<type>Constant</type>
<value>2000</value>
</property>
</properties>
</phase>
</phases>
<properties>
<property>
<name>porosity</name>
<type>Constant</type>
<value>0.01</value>
</property>
<property>
<name>biot_coefficient</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>reference_temperature</name>
<type>Constant</type>
<value>293.15</value>
</property>
<property>
<name>permeability</name>
<type>OrthotropicEmbeddedFracturePermeability</type>
<intrinsic_permeability>k</intrinsic_permeability>
<mean_frac_distances>1e-4 2e-4 3e-4</mean_frac_distances>
<threshold_strains>10e-5 5e-5 1e-5</threshold_strains>
<fracture_normals> 1 0 0 0 1 0 </fracture_normals>
<fracture_rotation_xy>zero</fracture_rotation_xy>
<fracture_rotation_yz>zero</fracture_rotation_yz>
</property>
</properties>
</medium>
</media>
<parameters>
<!-- Mechanics -->
<parameter>
<name>E</name>
<type>Constant</type>
<value>1e9</value>
</parameter>
<parameter>
<name>nu</name>
<type>Constant</type>
<value>.3</value>
</parameter>
<!-- Model parameters -->
<parameter>
<name>k</name>
<type>Constant</type>
<value>1e-19</value>
</parameter>
<parameter>
<name>displacement0</name>
<type>Constant</type>
<values>0 0 0</values>
</parameter>
<parameter>
<name>pressure_ic</name>
<type>Constant</type>
<values>1e5</values>
</parameter>
<parameter>
<name>flow_in</name>
<type>Constant</type>
<values>1e-10</values>
</parameter>
<parameter>
<name>dirichlet0</name>
<type>Constant</type>
<value>0</value>
</parameter>
<parameter>
<name>disp</name>
<type>Constant</type>
<value>5e-4</value>
</parameter>
<parameter>
<name>zero</name>
<type>Constant</type>
<value>0</value>
</parameter>
</parameters>
\ No newline at end of file
inst/extdata/benchmarks/OrthotropicEmbeddedFracturePermeability/ref_x_strain_y_flow.prj 0 → 100644
+ 248
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<?xml version="1.0" encoding="ISO-8859-1"?>
<OpenGeoSysProject>
<mesh>cube_1x1x1_quad.vtu</mesh>
<geometry>cube_1x1x1.gml</geometry>
<processes>
<process>
<name>HM</name>
<type>HYDRO_MECHANICS</type>
<integration_order>3</integration_order>
<process_variables>
<displacement>displacement</displacement>
<pressure>pressure</pressure>
</process_variables>
<secondary_variables>
<secondary_variable internal_name="sigma" output_name="sigma"/>
<secondary_variable internal_name="epsilon" output_name="epsilon"/>
<secondary_variable internal_name="velocity" output_name="velocity"/>
</secondary_variables>
<specific_body_force>0 0 0</specific_body_force>
<dimension>3</dimension>
<constitutive_relation>
<type>LinearElasticIsotropic</type>
<youngs_modulus>E</youngs_modulus>
<poissons_ratio>nu</poissons_ratio>
</constitutive_relation>
</process>
</processes>
<process_variables>
<process_variable>
<name>displacement</name>
<components>3</components>
<order>2</order>
<initial_condition>displacement0</initial_condition>
<boundary_conditions>
<boundary_condition>
<type>Dirichlet</type>
<parameter>dirichlet0</parameter>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>left</geometry>
<component>0</component>
</boundary_condition>
<boundary_condition>
<type>Dirichlet</type>
<parameter>disp</parameter>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>right</geometry>
<component>0</component>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>pressure</name>
<components>1</components>
<order>1</order>
<initial_condition>pressure_ic</initial_condition>
<boundary_conditions>
<boundary_condition>
<type>Neumann</type>
<parameter>flow_in</parameter>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>front</geometry>
<component>0</component>
</boundary_condition>
<boundary_condition>
<type>Dirichlet</type>
<parameter>pressure_ic</parameter>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>back</geometry>
<component>0</component>
</boundary_condition>
</boundary_conditions>
</process_variable>
</process_variables>
<media>
<medium>
<phases>
<phase>
<type>Gas</type>
<properties>
<property>
<name>viscosity</name>
<type>Constant</type>
<value>0.001</value>
</property>
<property>
<name>density</name>
<type>Constant</type>
<value>1</value>
</property>
</properties>
</phase>
<phase>
<type>Solid</type>
<properties>
<property>
<name>density</name>
<type>Constant</type>
<value>2000</value>
</property>
</properties>
</phase>
</phases>
<properties>
<property>
<name>porosity</name>
<type>Constant</type>
<value>0.01</value>
</property>
<property>
<name>biot_coefficient</name>
<type>Constant</type>
<value>0</value>
</property>
<property>
<name>reference_temperature</name>
<type>Constant</type>
<value>293.15</value>
</property>
<property>
<name>permeability</name>
<type>OrthotropicEmbeddedFracturePermeability</type>
<intrinsic_permeability>k</intrinsic_permeability>
<mean_frac_distances>1e-4 2e-4 3e-4</mean_frac_distances>
<threshold_strains>10e-5 5e-5 1e-5</threshold_strains>
<fracture_normals>1 0 0 0 1 0</fracture_normals>
<fracture_rotation_xy>zero</fracture_rotation_xy>
<fracture_rotation_yz>zero</fracture_rotation_yz>
</property>
</properties>
</medium>
</media>
<time_loop>
<processes>
<process ref="HM">
<nonlinear_solver>basic_newton</nonlinear_solver>
<convergence_criterion>
<type>PerComponentDeltaX</type>
<norm_type>NORM2</norm_type>
<reltols>1e-15 1e-15 1e-15 1e-15</reltols>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0</t_initial>
<t_end>1e+09</t_end>
<timesteps>
<pair>
<repeat>1</repeat>
<delta_t>1e+08</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
</processes>
<output>
<type>VTK</type>
<prefix>x_strain_y_flow</prefix>
<variables>
<variable>displacement</variable>
<variable>pressure</variable>
<variable>sigma_xx</variable>
<variable>sigma_yy</variable>
<variable>sigma_zz</variable>
<variable>sigma_xy</variable>
<variable>epsilon_xx</variable>
<variable>epsilon_yy</variable>
<variable>epsilon_zz</variable>
<variable>epsilon_xy</variable>
<variable>velocity</variable>
</variables>
<timesteps>
<pair>
<repeat>1</repeat>
<each_steps>10</each_steps>
</pair>
</timesteps>
</output>
</time_loop>
<linear_solvers>
<linear_solver>
<name>general_linear_solver</name>
<eigen>
<solver_type>BiCGSTAB</solver_type>
<precon_type>DIAGONAL</precon_type>
<max_iteration_step>10000</max_iteration_step>
<error_tolerance>1e-12</error_tolerance>
</eigen>
<lis>-i bicgstab -p ilu -tol 1e-12 -maxiter 10000</lis>
</linear_solver>
</linear_solvers>
<nonlinear_solvers>
<nonlinear_solver>
<name>basic_newton</name>
<type>Newton</type>
<max_iter>50</max_iter>
<linear_solver>general_linear_solver</linear_solver>
</nonlinear_solver>
</nonlinear_solvers>
<parameters>
<parameter>
<name>E</name>
<type>Constant</type>
<value>1e+09</value>
</parameter>
<parameter>
<name>nu</name>
<type>Constant</type>
<value>0.3</value>
</parameter>
<parameter>
<name>k</name>
<type>Constant</type>
<value>1e-19</value>
</parameter>
<parameter>
<name>displacement0</name>
<type>Constant</type>
<values>0 0 0</values>
</parameter>
<parameter>
<name>pressure_ic</name>
<type>Constant</type>
<values>1e+05</values>
</parameter>
<parameter>
<name>flow_in</name>
<type>Constant</type>
<values>1e-10</values>
</parameter>
<parameter>
<name>dirichlet0</name>
<type>Constant</type>
<value>0</value>
</parameter>
<parameter>
<name>disp</name>
<type>Constant</type>
<value>5e-04</value>
</parameter>
<parameter>
<name>zero</name>
<type>Constant</type>
<value>0</value>
</parameter>
</parameters>
</OpenGeoSysProject>
inst/extdata/benchmarks/OrthotropicEmbeddedFracturePermeability/x_strain_y_flow.prj 0 → 100644
+ 119
− 0
View file @ e955efaf
<?xml version="1.0" encoding="ISO-8859-1"?>
<OpenGeoSysProject>
<include file="cube_strain_flow_data.include"/>
<time_loop>
<processes>
<process ref="HM">
<nonlinear_solver>basic_newton</nonlinear_solver>
<convergence_criterion>
<type>PerComponentDeltaX</type>
<norm_type>NORM2</norm_type>
<reltols>1e-15 1e-15 1e-15 1e-15</reltols>
</convergence_criterion>
<time_discretization>
<type>BackwardEuler</type>
</time_discretization>
<time_stepping>
<type>FixedTimeStepping</type>
<t_initial>0</t_initial>
<t_end>1e9</t_end>
<timesteps>
<pair>
<repeat>1</repeat>
<delta_t>1e8</delta_t>
</pair>
</timesteps>
</time_stepping>
</process>
</processes>
<output>
<type>VTK</type>
<prefix>x_strain_y_flow</prefix>
<timesteps>
<pair>
<repeat>1</repeat>
<each_steps>10</each_steps>
</pair>
</timesteps>
<variables>
<variable>displacement</variable>
<variable>pressure</variable>
<variable>sigma_xx</variable>
<variable>sigma_yy</variable>
<variable>sigma_zz</variable>
<variable>sigma_xy</variable>
<variable>epsilon_xx</variable>
<variable>epsilon_yy</variable>
<variable>epsilon_zz</variable>
<variable>epsilon_xy</variable>
<variable>velocity</variable>
</variables>
</output>
</time_loop>
<process_variables>
<process_variable>
<name>displacement</name>
<components>3</components>
<order>2</order>
<initial_condition>displacement0</initial_condition>
<boundary_conditions>
<boundary_condition>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>left</geometry>
<type>Dirichlet</type>
<component>0</component>
<parameter>dirichlet0</parameter>
</boundary_condition>
<boundary_condition>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>right</geometry>
<type>Dirichlet</type>
<component>0</component>
<parameter>disp</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
<process_variable>
<name>pressure</name>
<components>1</components>
<order>1</order>
<initial_condition>pressure_ic</initial_condition>
<boundary_conditions>
<boundary_condition>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>front</geometry>
<type>Neumann</type>
<component>0</component>
<parameter>flow_in</parameter>
</boundary_condition>
<boundary_condition>
<geometrical_set>cube_1x1x1_geometry</geometrical_set>
<geometry>back</geometry>
<type>Dirichlet</type>
<component>0</component>
<parameter>pressure_ic</parameter>
</boundary_condition>
</boundary_conditions>
</process_variable>
</process_variables>
<nonlinear_solvers>
<nonlinear_solver>
<name>basic_newton</name>
<type>Newton</type>
<max_iter>50</max_iter>
<linear_solver>general_linear_solver</linear_solver>
</nonlinear_solver>
</nonlinear_solvers>
<linear_solvers>
<linear_solver>
<name>general_linear_solver</name>
<lis>-i bicgstab -p ilu -tol 1e-12 -maxiter 10000</lis>
<eigen>
<solver_type>BiCGSTAB</solver_type>
<precon_type>DIAGONAL</precon_type>
<max_iteration_step>10000</max_iteration_step>
<error_tolerance>1e-12</error_tolerance>
</eigen>
</linear_solver>
</linear_solvers>
</OpenGeoSysProject>
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