[cig-commits] r14222 - in long/3D/Gale/trunk: . input/benchmarks

walter at geodynamics.org walter at geodynamics.org
Wed Mar 4 09:09:36 PST 2009


Author: walter
Date: 2009-03-04 09:09:36 -0800 (Wed, 04 Mar 2009)
New Revision: 14222

Added:
   long/3D/Gale/trunk/input/benchmarks/geomod_2008_stable_transform.xml
   long/3D/Gale/trunk/input/benchmarks/geomod_2008_unstable_transform.xml
Modified:
   long/3D/Gale/trunk/
Log:
 r2524 at dante:  boo | 2009-03-04 06:29:03 -0800
 Add in geomod stable and unstable input files that use the new boundary method in MohrCoulomb



Property changes on: long/3D/Gale/trunk
___________________________________________________________________
Name: svk:merge
   - 3a629746-de10-0410-b17b-fd6ecaaa963e:/cig:2523
   + 3a629746-de10-0410-b17b-fd6ecaaa963e:/cig:2524

Added: long/3D/Gale/trunk/input/benchmarks/geomod_2008_stable_transform.xml
===================================================================
--- long/3D/Gale/trunk/input/benchmarks/geomod_2008_stable_transform.xml	                        (rev 0)
+++ long/3D/Gale/trunk/input/benchmarks/geomod_2008_stable_transform.xml	2009-03-04 17:09:36 UTC (rev 14222)
@@ -0,0 +1,597 @@
+<?xml version="1.0"?>
+<StGermainData xmlns="http://www.vpac.org/StGermain/XML_IO_Handler/Jun2003">
+  <struct name="components">
+    <struct name="mesh-linear">
+      <param name="Type">FeMesh</param>
+      <param name="elementType">linear</param>
+    </struct>
+    <struct name="linearMesh-generator">
+      <param name="Type">CartesianGenerator</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="dim">dim</param>
+      <param name="shadowDepth">shadowDepth</param>
+      <list name="size">
+        <param>elementResI</param>
+        <param>elementResJ</param>
+        <param>elementResK</param>
+      </list>
+      <list name="minCoord">
+        <param>minX</param>
+        <param>minY</param>
+        <param>minZ</param>
+      </list>
+      <list name="maxCoord">
+        <param>maxX</param>
+        <param>maxY</param>
+        <param>maxZ</param>
+      </list>
+    </struct>
+    <struct name="velocity">
+      <param name="Type">MeshVariable</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="Rank">Vector</param>
+      <param name="DataType">Double</param>
+      <param name="VectorComponentCount">dim</param>
+      <list name="names">
+        <param>vx</param>
+        <param>vy</param>
+        <param>vz</param>
+      </list>
+    </struct>
+    <struct name="velocityBCs">
+      <param name="Type">CompositeVC</param>
+      <param name="Data">mesh-linear</param>
+    </struct>
+    <struct name="velocityICs">
+      <param name="Type">CompositeVC</param>
+      <param name="Data">mesh-linear</param>
+    </struct>
+    <struct name="velocityDofLayout">
+      <param name="Type">DofLayout</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="BaseVariableCount">dim</param>
+      <list name="BaseVariables">
+        <param>vx</param>
+        <param>vy</param>
+        <param>vz</param>
+      </list>
+    </struct>
+    <struct name="VelocityField">
+      <param name="Type">FeVariable</param>
+      <param name="FEMesh">mesh-linear</param>
+      <param name="DofLayout">velocityDofLayout</param>
+      <param name="BC">velocityBCs</param>
+      <param name="IC">velocityICs</param>
+      <param name="LinkedDofInfo">velocityLinkedDofs</param>
+    </struct>
+    <struct name="VelocityMagnitudeField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">Magnitude</param>
+      <param name="FeVariable">VelocityField</param>
+    </struct>
+    <struct name="VelocityGradientsField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">Gradient</param>
+      <param name="FeVariable">VelocityField</param>
+    </struct>
+    <struct name="VelocityGradientsInvariantField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">TensorInvariant</param>
+      <param name="FeVariable">VelocityGradientsField</param>
+    </struct>
+    <struct name="StrainRateField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">TensorSymmetricPart</param>
+      <param name="FeVariable">VelocityGradientsField</param>
+    </struct>
+    <struct name="VorticityField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">TensorAntisymmetricPart</param>
+      <param name="FeVariable">VelocityGradientsField</param>
+    </struct>
+    <struct name="StrainRateInvariantField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">SymmetricTensor_Invariant</param>
+      <param name="FeVariable">StrainRateField</param>
+    </struct>
+    <struct name="pressure">
+      <param name="Type">MeshVariable</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="Rank">Scalar</param>
+      <param name="DataType">Double</param>
+    </struct>
+    <struct name="pressureDofLayout">
+      <param name="Type">DofLayout</param>
+      <param name="mesh">mesh-linear</param>
+      <list name="BaseVariables">
+        <param>pressure</param>
+      </list>
+    </struct>
+    <struct name="PressureField">
+      <param name="Type">FeVariable</param>
+      <param name="FEMesh">mesh-linear</param>
+      <param name="DofLayout">pressureDofLayout</param>
+      <param name="LinkedDofInfo">pressureLinkedDofs</param>
+    </struct>
+
+    <struct name="StressField">
+      <param name="Type">StressField</param>
+      <param name="StrainRateField">StrainRateField</param>
+      <param name="Context">context</param>
+      <param name="ConstitutiveMatrix">constitutiveMatrix</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="Mesh">mesh-linear</param>
+      <param name="IC">stressICs</param>
+    </struct>
+    <struct name="ViscosityField">
+      <param name="Type">ViscosityField</param>
+      <param name="Context">context</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="Mesh">mesh-linear</param>
+      <param name="ConstitutiveMatrix">constitutiveMatrix</param>
+    </struct> 
+    <struct name="cellLayout">
+      <param name="Type">SingleCellLayout</param>
+    </struct>
+    <struct name="particleLayout">
+      <param name="Type">GaussParticleLayout</param>
+    </struct>
+    <struct name="gaussSwarm">
+      <param name="Type">IntegrationPointsSwarm</param>
+      <param name="CellLayout">cellLayout</param>
+      <param name="ParticleLayout">particleLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="IntegrationPointMapper">gaussMapper</param>
+    </struct>
+    <struct name="gaussMapper">
+      <param name="Type">GaussMapper</param>
+      <param name="IntegrationPointsSwarm">gaussSwarm</param>
+      <param name="MaterialPointsSwarm">gaussMaterialSwarm</param>
+    </struct>
+    <struct name="backgroundLayout">
+      <param name="Type">BackgroundParticleLayout</param>
+    </struct>
+    <struct name="gaussMaterialSwarm">
+      <param name="Type">MaterialPointsSwarm</param>
+      <param name="CellLayout">cellLayout</param>
+      <param name="ParticleLayout">backgroundLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+    </struct>
+    <struct name="timeIntegrator">
+      <param name="Type">TimeIntegrator</param>
+      <param name="order">1</param>
+      <param name="simultaneous">t</param>
+      <param name="Context">context</param>
+    </struct>
+    <struct name="elementCellLayout">
+      <param name="Type">ElementCellLayout</param>
+      <param name="Mesh">mesh-linear</param>
+    </struct>
+    <struct name="weights">
+      <param name="Type">PCDVC</param>
+      <param name="resolutionX">10</param>
+      <param name="resolutionY">10</param>
+      <param name="resolutionZ">10</param>
+      <param name="lowerT">0.6</param>
+      <param name="upperT">25</param>
+      <param name="maxDeletions">3</param>
+      <param name="maxSplits">3</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="localLayout">
+      <param name="Type">MappedParticleLayout</param>
+    </struct>
+    <struct name="picIntegrationPoints">
+      <param name="Type">IntegrationPointsSwarm</param>
+      <param name="CellLayout">elementCellLayout</param>
+      <param name="ParticleLayout">localLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+      <param name="WeightsCalculator">weights</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="IntegrationPointMapper">mapper</param>
+    </struct>
+    <struct name="mapper">
+      <param name="Type">CoincidentMapper</param>
+      <param name="IntegrationPointsSwarm">picIntegrationPoints</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="materialSwarmParticleLayout">
+      <param name="Type">MeshParticleLayout</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="cellParticleCount">particlesPerCell</param>
+    </struct>
+    <struct name="materialSwarm">
+      <param name="Type">MaterialPointsSwarm</param>
+      <param name="CellLayout">elementCellLayout</param>
+      <param name="ParticleLayout">materialSwarmParticleLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+      <param name="SplittingRoutine">splittingRoutine</param>
+      <param name="RemovalRoutine">removalRoutine</param>
+      <param name="EscapedRoutine">escapedRoutine</param>
+    </struct>
+    <struct name="materialSwarmAdvector">
+      <param name="Type">SwarmAdvector</param>
+      <param name="Swarm">materialSwarm</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="VelocityField">VelocityField</param>
+      <param name="PeriodicBCsManager">periodicBCsManager</param>
+      <param name="allowFallbackToFirstOrder">True</param>
+    </struct>
+    <struct name="solutionVelocity">
+      <param name="Type">SolutionVector</param>
+      <param name="FeVariable">VelocityField</param>
+    </struct>
+    <struct name="solutionPressure">
+      <param name="Type">SolutionVector</param>
+      <param name="FeVariable">PressureField</param>
+    </struct>
+    <struct name="mom_force">
+      <param name="Type">ForceVector</param>
+      <param name="FeVariable">VelocityField</param>
+      <param name="ExtraInfo">context</param>
+    </struct>
+    <struct name="cont_force">
+      <param name="Type">ForceVector</param>
+      <param name="FeVariable">PressureField</param>
+      <param name="ExtraInfo">context</param>
+    </struct>
+    <struct name="k_matrix">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">VelocityField</param>
+      <param name="ColumnVariable">VelocityField</param>
+      <param name="RHS">mom_force</param>
+      <param name="allowZeroElementContributions">False</param>
+    </struct>
+    <struct name="constitutiveMatrix">
+      <param name="Type">ConstitutiveMatrixCartesian</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="StiffnessMatrix">k_matrix</param>
+    </struct>
+    <struct name="g_matrix">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">VelocityField</param>
+      <param name="ColumnVariable">PressureField</param>
+      <param name="RHS">cont_force</param>
+      <param name="allowZeroElementContributions">False</param>
+    </struct>
+    <struct name="gradientStiffnessMatrixTerm">
+      <param name="Type">GradientStiffnessMatrixTerm</param>
+      <param name="Swarm">gaussSwarm</param>
+      <param name="StiffnessMatrix">g_matrix</param>
+    </struct>
+    <struct name="preconditioner">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">PressureField</param>
+      <param name="ColumnVariable">PressureField</param>
+      <param name="RHS">cont_force</param>
+      <param name="allowZeroElementContributions">True</param>
+    </struct>
+    <struct name="preconditionerTerm">
+      <param name="Type">UzawaPreconditionerTerm</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="StiffnessMatrix">preconditioner</param>
+    </struct>
+    <struct name="uzawa">
+      <param name="Type">Stokes_SLE_UzawaSolver</param>
+      <param name="Preconditioner">preconditioner</param>
+      <param name="tolerance">linearTolerance</param>
+      <param name="maxIterations">maxUzawaIterations</param>
+    </struct>
+    <struct name="stokesEqn">
+      <param name="Type">Stokes_SLE</param>
+      <param name="SLE_Solver">uzawa</param>
+      <param name="Context">context</param>
+      <param name="StressTensorMatrix">k_matrix</param>
+      <param name="GradientMatrix">g_matrix</param>
+      <param name="DivergenceMatrix"></param>
+      <param name="CompressibilityMatrix">c_matrix</param>
+      <param name="VelocityVector">solutionVelocity</param>
+      <param name="PressureVector">solutionPressure</param>
+      <param name="ForceVector">mom_force</param>
+      <param name="ContinuityForceVector">cont_force</param>
+      <param name="killNonConvergent">false</param>
+      <param name="nonLinearMaxIterations">nonLinearMaxIterations</param>
+      <param name="nonLinearTolerance">nonLinearTolerance</param>
+      <param name="makeConvergenceFile">false</param>
+    </struct>
+    <struct name="c_matrix">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">PressureField</param>
+      <param name="ColumnVariable">PressureField</param>
+      <param name="RHS">cont_force</param>
+      <param name="allowZeroElementContributions">True</param>
+    </struct>
+    <struct name="mixedStabiliser">
+      <param name="Type">MixedStabiliserTerm</param>
+      <param name="Swarm">gaussSwarm</param>
+      <param name="picSwarm">picIntegrationPoints</param>
+      <param name="storeVisc">storeViscosity</param>
+      <param name="StiffnessMatrix">c_matrix</param>
+    </struct>
+    <struct name="buoyancyForceTerm">
+      <param name="Type">BuoyancyForceTerm</param>
+      <param name="ForceVector">mom_force</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="gravity">9.81</param>
+    </struct>
+    <struct name="backgroundShape">
+      <param name="Type">Everywhere</param>
+    </struct>
+
+    <struct name="wedgeShape">
+      <param name="Type">PolygonShape</param>
+      <list name="verticies">
+        <asciidata>
+          <columnDefinition name = "x" type="double"/>
+          <columnDefinition name = "y" type="double"/>
+          0.05        0.0
+          0.1324      0.0
+          0.1324      0.03
+        </asciidata>
+      </list>
+    </struct>
+
+    <struct name="bottomBoundaryShape">
+      <param name="Type">Box</param>
+      <param name="startX">minX</param>
+      <param name="endX">maxX</param>
+      <param name="startY">minY</param>
+      <param name="endY">boundaryHeight</param>
+      <param name="startZ">minZ</param>
+      <param name="endZ">maxZ</param>
+    </struct>
+
+    <struct name="quartzShape">
+      <param name="Type">Union</param>
+      <list name="shapes">
+        <param>wedgeShape</param>
+        <param>bottomBoundaryShape</param>
+      </list>
+    </struct>
+
+    <struct name="airShape">
+      <param name="Type">Intersection</param>
+      <list name="shapes">
+        <param>backgroundShape</param>
+        <param>!quartzShape</param>
+      </list>
+    </struct>
+
+    <struct name="quartzStrainWeakening">
+      <param name="Type">StrainWeakening</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+      <param name="initialSofteningStrain">0.5</param>
+      <param name="finalSofteningStrain">1.0</param>
+      <param name="initialDamageFraction">0.0</param>
+      <param name="initialDamageWavenumber">0.5</param>
+      <param name="initialDamageFactor">0.5</param>
+      <param name="healingRate">0.0</param>
+    </struct>
+    <struct name="quartzYielding">
+      <param name="Type">MohrCoulomb</param>
+      <param name="PressureField">PressureField</param>
+      <param name="VelocityGradientsField">VelocityGradientsField</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+      <param name="Context">context</param>
+      <param name="StrainWeakening">quartzStrainWeakening</param>
+      <param name="cohesion">30.0</param>
+      <param name="cohesionAfterSoftening">30</param>
+      <param name="frictionCoefficient">1.05737126344</param>
+      <param name="frictionCoefficientAfterSoftening">0.75168293455</param>
+<!--       <param name="frictionCoefficient">0.726542528005</param> -->
+<!--       <param name="frictionCoefficientAfterSoftening">0.600860619027</param> -->
+      <param name="boundaryCohesion">30.0</param>
+      <param name="boundaryCohesionAfterSoftening">30</param>
+      <param name="boundaryFrictionCoefficient">0.299314553072</param>
+      <param name="boundaryFrictionCoefficientAfterSoftening">0.257458783778</param>
+<!--       <param name="boundaryFrictionCoefficient">0.286745385759</param> -->
+<!--       <param name="boundaryFrictionCoefficientAfterSoftening">0.249328002843</param> -->
+      <param name="boundaryBottom">True</param>
+      <param name="boundaryRight">True</param>
+    </struct>
+    <struct name="quartzViscosity">
+      <param name="Type">MaterialViscosity</param>
+      <param name="eta0">1.0e2</param>
+<!--       <param name="eta0">1.0e12</param> -->
+    </struct>
+
+    <struct name="airViscosity">
+      <param name="Type">MaterialViscosity</param>
+      <param name="eta0">1.0e-10</param>
+<!--       <param name="eta0">1.0e-6</param> -->
+<!--       <param name="eta0">1.0e4</param> -->
+    </struct>
+
+    <struct name="storeViscosity">
+      <param name="Type">StoreVisc</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="storeStress">
+      <param name="Type">StoreStress</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="quartz">
+      <param name="Type">RheologyMaterial</param>
+      <param name="Shape">quartzShape</param>
+      <param name="density">1560</param>
+      <list name="Rheology">
+        <param>quartzViscosity</param>
+        <param>quartzYielding</param>
+        <param>storeViscosity</param>
+        <param>storeStress</param>
+      </list>
+    </struct>
+
+    <struct name="air">
+      <param name="Type">RheologyMaterial</param>
+      <param name="Shape">airShape</param>
+      <param name="density">0</param>
+      <list name="Rheology">
+        <param>airViscosity</param>
+        <param>storeViscosity</param>
+        <param>storeStress</param>
+      </list>
+    </struct>
+    <struct name="escapedRoutine">
+      <param name="Type">EscapedRoutine</param>
+      <param name="idealParticleCount">0</param>
+    </struct>
+    <struct name="velocityRemesher">
+      <param name="Type">StripRemesher</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="meshType">regular</param>
+      <list name="dim">
+        <param>true</param>
+        <param>true</param>
+        <param>true</param>
+      </list>
+    </struct>
+    <struct name="conditionFunctions">
+      <param name="Type">StgFEM_StandardConditionFunctions</param>
+    </struct>
+  </struct>
+  <list name="plugins">
+    <param>Underworld_EulerDeform</param>
+    <param>Underworld_VTKOutput</param>
+  </list>
+  <param name="maxTimeSteps">1600</param>
+  <param name="outputEvery">1</param>
+  <param name="dumpEvery">1</param>
+  <param name="outputPath">./output.geomod_stable</param>
+  <param name="dim">2</param>
+  <param name="shadowDepth">1</param>
+  <param name="minX">0.0f</param>
+  <param name="minY">0.0f</param>
+  <param name="minZ">0.0f</param>
+  <param name="maxX">0.1324f</param>
+  <param name="maxY">0.032f</param>
+  <param name="maxZ">1.0f</param>
+  <param name="elementResI">32</param>
+  <param name="elementResJ">32</param>
+  <param name="elementResK">4</param>
+  <param name="allowUnbalancing">True</param>
+  <param name="buildNodeNeighbourTbl">True</param>
+  <param name="buildElementNeighbourTbl">True</param>
+  <param name="particlesPerCell">30</param>
+  <param name="seed">13</param>
+  <param name="gaussParticlesX">2</param>
+  <param name="gaussParticlesY">2</param>
+  <param name="gaussParticlesZ">2</param>
+  <param name="particlesPerCell">30</param>
+  <struct name="EulerDeform">
+    <list name="systems">
+      <struct>
+        <param name="mesh">mesh-linear</param>
+        <param name="remesher">velocityRemesher</param>
+        <param name="velocityField">VelocityField</param>
+        <param name="wrapTop">False</param>
+        <param name="staticTop">True</param>
+        <param name="staticBottom">True</param>
+        <list name="fields">
+          <struct>
+            <param name="field">VelocityField</param>
+            <param name="variable">velocity</param>
+          </struct>
+          <struct>
+            <param name="field">PressureField</param>
+            <param name="variable">pressure</param>
+          </struct>
+        </list>
+      </struct>
+    </list>
+  </struct>
+  <struct name="velocityBCs">
+    <param name="type">CompositeVC</param>
+    <list name="vcList">
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">front</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vz</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">back</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vz</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">bottom</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vx</param>
+            <param name="type">double</param>
+            <!-- 2.5 cm/hr -->
+            <param name="value">6.94444444444e4</param>
+<!--             <param name="value">-6.94444444444e-6</param> -->
+<!--             <param name="value">0.0</param> -->
+          </struct>
+          <struct>
+            <param name="name">vy</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">left</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vx</param>
+            <param name="type">double</param>
+            <!-- 2.5 cm/hr -->
+            <param name="value">6.94444444444e4</param>
+<!--             <param name="value">-6.94444444444e-6</param> -->
+<!--             <param name="value">0.0</param> -->
+          </struct>
+          <struct>
+            <param name="name">vy</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">right</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vx</param>
+            <param name="type">double</param>
+            <param name="value">0.0</param>
+          </struct>
+          <struct>
+            <param name="name">vy</param>
+            <param name="type">double</param>
+            <param name="value">0.0</param>
+          </struct>
+        </list>
+      </struct>
+
+    </list>
+  </struct>
+
+  <param name="linearTolerance">1.0e-7</param>
+  <param name="nonLinearTolerance">1.0e-3</param>
+  <param name="boundaryHeight">0.001</param>
+
+  <param name="journal.info">True</param>
+  <param name="journal.debug">True</param>
+  <param name="journal-level.info">2</param>
+  <param name="journal-level.debug">2</param>
+  <param name="diffusionCoefficient">1.0e-8</param>
+</StGermainData>

Added: long/3D/Gale/trunk/input/benchmarks/geomod_2008_unstable_transform.xml
===================================================================
--- long/3D/Gale/trunk/input/benchmarks/geomod_2008_unstable_transform.xml	                        (rev 0)
+++ long/3D/Gale/trunk/input/benchmarks/geomod_2008_unstable_transform.xml	2009-03-04 17:09:36 UTC (rev 14222)
@@ -0,0 +1,601 @@
+<?xml version="1.0"?>
+<StGermainData xmlns="http://www.vpac.org/StGermain/XML_IO_Handler/Jun2003">
+  <struct name="components">
+    <struct name="mesh-linear">
+      <param name="Type">FeMesh</param>
+      <param name="elementType">linear</param>
+    </struct>
+    <struct name="linearMesh-generator">
+      <param name="Type">CartesianGenerator</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="dim">dim</param>
+      <param name="shadowDepth">shadowDepth</param>
+      <list name="size">
+        <param>elementResI</param>
+        <param>elementResJ</param>
+        <param>elementResK</param>
+      </list>
+      <list name="minCoord">
+        <param>minX</param>
+        <param>minY</param>
+        <param>minZ</param>
+      </list>
+      <list name="maxCoord">
+        <param>maxX</param>
+        <param>maxY</param>
+        <param>maxZ</param>
+      </list>
+    </struct>
+    <struct name="velocity">
+      <param name="Type">MeshVariable</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="Rank">Vector</param>
+      <param name="DataType">Double</param>
+      <param name="VectorComponentCount">dim</param>
+      <list name="names">
+        <param>vx</param>
+        <param>vy</param>
+        <param>vz</param>
+      </list>
+    </struct>
+    <struct name="velocityBCs">
+      <param name="Type">CompositeVC</param>
+      <param name="Data">mesh-linear</param>
+    </struct>
+    <struct name="velocityICs">
+      <param name="Type">CompositeVC</param>
+      <param name="Data">mesh-linear</param>
+    </struct>
+    <struct name="velocityDofLayout">
+      <param name="Type">DofLayout</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="BaseVariableCount">dim</param>
+      <list name="BaseVariables">
+        <param>vx</param>
+        <param>vy</param>
+        <param>vz</param>
+      </list>
+    </struct>
+    <struct name="VelocityField">
+      <param name="Type">FeVariable</param>
+      <param name="FEMesh">mesh-linear</param>
+      <param name="DofLayout">velocityDofLayout</param>
+      <param name="BC">velocityBCs</param>
+      <param name="IC">velocityICs</param>
+      <param name="LinkedDofInfo">velocityLinkedDofs</param>
+    </struct>
+    <struct name="VelocityMagnitudeField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">Magnitude</param>
+      <param name="FeVariable">VelocityField</param>
+    </struct>
+    <struct name="VelocityGradientsField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">Gradient</param>
+      <param name="FeVariable">VelocityField</param>
+    </struct>
+    <struct name="VelocityGradientsInvariantField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">TensorInvariant</param>
+      <param name="FeVariable">VelocityGradientsField</param>
+    </struct>
+    <struct name="StrainRateField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">TensorSymmetricPart</param>
+      <param name="FeVariable">VelocityGradientsField</param>
+    </struct>
+    <struct name="VorticityField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">TensorAntisymmetricPart</param>
+      <param name="FeVariable">VelocityGradientsField</param>
+    </struct>
+    <struct name="StrainRateInvariantField">
+      <param name="Type">OperatorFeVariable</param>
+      <param name="Operator">SymmetricTensor_Invariant</param>
+      <param name="FeVariable">StrainRateField</param>
+    </struct>
+    <struct name="pressure">
+      <param name="Type">MeshVariable</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="Rank">Scalar</param>
+      <param name="DataType">Double</param>
+    </struct>
+    <struct name="pressureDofLayout">
+      <param name="Type">DofLayout</param>
+      <param name="mesh">mesh-linear</param>
+      <list name="BaseVariables">
+        <param>pressure</param>
+      </list>
+    </struct>
+    <struct name="PressureField">
+      <param name="Type">FeVariable</param>
+      <param name="FEMesh">mesh-linear</param>
+      <param name="DofLayout">pressureDofLayout</param>
+      <param name="LinkedDofInfo">pressureLinkedDofs</param>
+    </struct>
+
+    <struct name="StressField">
+      <param name="Type">StressField</param>
+      <param name="StrainRateField">StrainRateField</param>
+      <param name="Context">context</param>
+      <param name="ConstitutiveMatrix">constitutiveMatrix</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="Mesh">mesh-linear</param>
+      <param name="IC">stressICs</param>
+    </struct>
+    <struct name="ViscosityField">
+      <param name="Type">ViscosityField</param>
+      <param name="Context">context</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="Mesh">mesh-linear</param>
+      <param name="ConstitutiveMatrix">constitutiveMatrix</param>
+    </struct> 
+    <struct name="cellLayout">
+      <param name="Type">SingleCellLayout</param>
+    </struct>
+    <struct name="particleLayout">
+      <param name="Type">GaussParticleLayout</param>
+    </struct>
+    <struct name="gaussSwarm">
+      <param name="Type">IntegrationPointsSwarm</param>
+      <param name="CellLayout">cellLayout</param>
+      <param name="ParticleLayout">particleLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="IntegrationPointMapper">gaussMapper</param>
+    </struct>
+    <struct name="gaussMapper">
+      <param name="Type">GaussMapper</param>
+      <param name="IntegrationPointsSwarm">gaussSwarm</param>
+      <param name="MaterialPointsSwarm">gaussMaterialSwarm</param>
+    </struct>
+    <struct name="backgroundLayout">
+      <param name="Type">BackgroundParticleLayout</param>
+    </struct>
+    <struct name="gaussMaterialSwarm">
+      <param name="Type">MaterialPointsSwarm</param>
+      <param name="CellLayout">cellLayout</param>
+      <param name="ParticleLayout">backgroundLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+    </struct>
+    <struct name="timeIntegrator">
+      <param name="Type">TimeIntegrator</param>
+      <param name="order">1</param>
+      <param name="simultaneous">t</param>
+      <param name="Context">context</param>
+    </struct>
+    <struct name="elementCellLayout">
+      <param name="Type">ElementCellLayout</param>
+      <param name="Mesh">mesh-linear</param>
+    </struct>
+    <struct name="weights">
+      <param name="Type">PCDVC</param>
+      <param name="resolutionX">10</param>
+      <param name="resolutionY">10</param>
+      <param name="resolutionZ">10</param>
+      <param name="lowerT">0.6</param>
+      <param name="upperT">25</param>
+      <param name="maxDeletions">3</param>
+      <param name="maxSplits">3</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="localLayout">
+      <param name="Type">MappedParticleLayout</param>
+    </struct>
+    <struct name="picIntegrationPoints">
+      <param name="Type">IntegrationPointsSwarm</param>
+      <param name="CellLayout">elementCellLayout</param>
+      <param name="ParticleLayout">localLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+      <param name="WeightsCalculator">weights</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="IntegrationPointMapper">mapper</param>
+    </struct>
+    <struct name="mapper">
+      <param name="Type">CoincidentMapper</param>
+      <param name="IntegrationPointsSwarm">picIntegrationPoints</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="materialSwarmParticleLayout">
+      <param name="Type">MeshParticleLayout</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="cellParticleCount">particlesPerCell</param>
+    </struct>
+    <struct name="materialSwarm">
+      <param name="Type">MaterialPointsSwarm</param>
+      <param name="CellLayout">elementCellLayout</param>
+      <param name="ParticleLayout">materialSwarmParticleLayout</param>
+      <param name="FeMesh">mesh-linear</param>
+      <param name="SplittingRoutine">splittingRoutine</param>
+      <param name="RemovalRoutine">removalRoutine</param>
+      <param name="EscapedRoutine">escapedRoutine</param>
+    </struct>
+    <struct name="materialSwarmAdvector">
+      <param name="Type">SwarmAdvector</param>
+      <param name="Swarm">materialSwarm</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="VelocityField">VelocityField</param>
+      <param name="PeriodicBCsManager">periodicBCsManager</param>
+      <param name="allowFallbackToFirstOrder">True</param>
+    </struct>
+    <struct name="solutionVelocity">
+      <param name="Type">SolutionVector</param>
+      <param name="FeVariable">VelocityField</param>
+    </struct>
+    <struct name="solutionPressure">
+      <param name="Type">SolutionVector</param>
+      <param name="FeVariable">PressureField</param>
+    </struct>
+    <struct name="mom_force">
+      <param name="Type">ForceVector</param>
+      <param name="FeVariable">VelocityField</param>
+      <param name="ExtraInfo">context</param>
+    </struct>
+    <struct name="cont_force">
+      <param name="Type">ForceVector</param>
+      <param name="FeVariable">PressureField</param>
+      <param name="ExtraInfo">context</param>
+    </struct>
+    <struct name="k_matrix">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">VelocityField</param>
+      <param name="ColumnVariable">VelocityField</param>
+      <param name="RHS">mom_force</param>
+      <param name="allowZeroElementContributions">False</param>
+    </struct>
+    <struct name="constitutiveMatrix">
+      <param name="Type">ConstitutiveMatrixCartesian</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="StiffnessMatrix">k_matrix</param>
+    </struct>
+    <struct name="g_matrix">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">VelocityField</param>
+      <param name="ColumnVariable">PressureField</param>
+      <param name="RHS">cont_force</param>
+      <param name="allowZeroElementContributions">False</param>
+    </struct>
+    <struct name="gradientStiffnessMatrixTerm">
+      <param name="Type">GradientStiffnessMatrixTerm</param>
+      <param name="Swarm">gaussSwarm</param>
+      <param name="StiffnessMatrix">g_matrix</param>
+    </struct>
+    <struct name="preconditioner">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">PressureField</param>
+      <param name="ColumnVariable">PressureField</param>
+      <param name="RHS">cont_force</param>
+      <param name="allowZeroElementContributions">True</param>
+    </struct>
+    <struct name="preconditionerTerm">
+      <param name="Type">UzawaPreconditionerTerm</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="StiffnessMatrix">preconditioner</param>
+    </struct>
+    <struct name="uzawa">
+      <param name="Type">Stokes_SLE_UzawaSolver</param>
+      <param name="Preconditioner">preconditioner</param>
+      <param name="tolerance">linearTolerance</param>
+      <param name="maxIterations">maxUzawaIterations</param>
+    </struct>
+    <struct name="stokesEqn">
+      <param name="Type">Stokes_SLE</param>
+      <param name="SLE_Solver">uzawa</param>
+      <param name="Context">context</param>
+      <param name="StressTensorMatrix">k_matrix</param>
+      <param name="GradientMatrix">g_matrix</param>
+      <param name="DivergenceMatrix"></param>
+      <param name="CompressibilityMatrix">c_matrix</param>
+      <param name="VelocityVector">solutionVelocity</param>
+      <param name="PressureVector">solutionPressure</param>
+      <param name="ForceVector">mom_force</param>
+      <param name="ContinuityForceVector">cont_force</param>
+      <param name="killNonConvergent">false</param>
+      <param name="nonLinearMaxIterations">nonLinearMaxIterations</param>
+      <param name="nonLinearTolerance">nonLinearTolerance</param>
+      <param name="makeConvergenceFile">false</param>
+    </struct>
+    <struct name="c_matrix">
+      <param name="Type">StiffnessMatrix</param>
+      <param name="RowVariable">PressureField</param>
+      <param name="ColumnVariable">PressureField</param>
+      <param name="RHS">cont_force</param>
+      <param name="allowZeroElementContributions">True</param>
+    </struct>
+    <struct name="mixedStabiliser">
+      <param name="Type">MixedStabiliserTerm</param>
+      <param name="Swarm">gaussSwarm</param>
+      <param name="picSwarm">picIntegrationPoints</param>
+      <param name="storeVisc">storeViscosity</param>
+      <param name="StiffnessMatrix">c_matrix</param>
+    </struct>
+    <struct name="buoyancyForceTerm">
+      <param name="Type">BuoyancyForceTerm</param>
+      <param name="ForceVector">mom_force</param>
+      <param name="Swarm">picIntegrationPoints</param>
+      <param name="gravity">9.81</param>
+    </struct>
+    <struct name="backgroundShape">
+      <param name="Type">Everywhere</param>
+    </struct>
+    <struct name="corundumShape">
+      <param name="Type">Box</param>
+      <param name="startX">minX</param>
+      <param name="endX">maxX</param>
+      <param name="startY">0.01</param>
+      <param name="endY">0.02</param>
+      <param name="startZ">minZ</param>
+      <param name="endZ">maxZ</param>
+    </struct>
+    <struct name="quartzShape">
+      <param name="Type">Intersection</param>
+      <list name="shapes">
+        <param>backgroundShape</param>
+        <param>!corundumShape</param>
+      </list>
+    </struct>
+
+    <struct name="quartzStrainWeakening">
+      <param name="Type">StrainWeakening</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+      <param name="initialSofteningStrain">0.5</param>
+      <param name="finalSofteningStrain">1.0</param>
+      <param name="initialDamageFraction">0.0</param>
+      <param name="initialDamageWavenumber">0.5</param>
+      <param name="initialDamageFactor">0.5</param>
+      <param name="healingRate">0.0</param>
+    </struct>
+    <struct name="quartzYielding">
+      <param name="Type">MohrCoulomb</param>
+      <param name="PressureField">PressureField</param>
+      <param name="VelocityGradientsField">VelocityGradientsField</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+      <param name="Context">context</param>
+      <param name="StrainWeakening">quartzStrainWeakening</param>
+      <param name="cohesion">30.0</param>
+      <param name="cohesionAfterSoftening">30</param>
+      <param name="frictionCoefficient">1.05737126344</param>
+      <param name="frictionCoefficientAfterSoftening">0.75168293455</param>
+<!--       <param name="frictionCoefficient">0.726542528005</param> -->
+<!--       <param name="frictionCoefficientAfterSoftening">0.600860619027</param> -->
+      <param name="boundaryCohesion">30</param>
+      <param name="boundaryCohesionAfterSoftening">30</param>
+      <param name="boundaryFrictionCoefficient">0.299314553072</param>
+      <param name="boundaryFrictionCoefficientAfterSoftening">0.257458783778</param>
+<!--       <param name="boundaryFrictionCoefficient">0.286745385759</param> -->
+<!--       <param name="boundaryFrictionCoefficientAfterSoftening">0.249328002843</param> -->
+      <param name="boundaryBottom">True</param>
+      <param name="boundaryRight">True</param>
+    </struct>
+    <struct name="quartzViscosity">
+      <param name="Type">MaterialViscosity</param>
+      <param name="eta0">1.0e2</param>
+<!--       <param name="eta0">1.0e12</param> -->
+    </struct>
+
+    <struct name="corundumStrainWeakening">
+      <param name="Type">StrainWeakening</param>
+      <param name="TimeIntegrator">timeIntegrator</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+      <param name="initialSofteningStrain">0.5</param>
+      <param name="finalSofteningStrain">1.0</param>
+      <param name="initialDamageFraction">0.0</param>
+      <param name="initialDamageWavenumber">0.5</param>
+      <param name="initialDamageFactor">0.5</param>
+      <param name="healingRate">0.0</param>
+    </struct>
+    <struct name="corundumYielding">
+      <param name="Type">MohrCoulomb</param>
+      <param name="PressureField">PressureField</param>
+      <param name="VelocityGradientsField">VelocityGradientsField</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+      <param name="Context">context</param>
+      <param name="StrainWeakening">corundumStrainWeakening</param>
+      <param name="cohesion">30.0</param>
+      <param name="cohesionAfterSoftening">30</param>
+      <param name="frictionCoefficient">1.05737126344</param>
+      <param name="frictionCoefficientAfterSoftening">0.75168293455</param>
+<!--       <param name="frictionCoefficient">0.726542528005</param> -->
+<!--       <param name="frictionCoefficientAfterSoftening">0.600860619027</param> -->
+      <param name="boundaryCohesion">30</param>
+      <param name="boundaryCohesionAfterSoftening">30</param>
+      <param name="boundaryFrictionCoefficient">0.497230605386</param>
+      <param name="boundaryFrictionCoefficientAfterSoftening">0.468805151222</param>
+<!--       <param name="boundaryFrictionCoefficient">0.445228685309</param> -->
+<!--       <param name="boundaryFrictionCoefficientAfterSoftening">0.42447481621</param> -->
+      <param name="boundaryBottom">True</param>
+      <param name="boundaryRight">True</param>
+    </struct>
+    <struct name="corundumViscosity">
+      <param name="Type">MaterialViscosity</param>
+      <param name="eta0">1.0e2</param>
+<!--       <param name="eta0">1.0e12</param> -->
+    </struct>
+
+    <struct name="storeViscosity">
+      <param name="Type">StoreVisc</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="storeStress">
+      <param name="Type">StoreStress</param>
+      <param name="MaterialPointsSwarm">materialSwarm</param>
+    </struct>
+    <struct name="quartz">
+      <param name="Type">RheologyMaterial</param>
+      <param name="Shape">quartzShape</param>
+      <param name="density">1560</param>
+      <list name="Rheology">
+        <param>quartzViscosity</param>
+        <param>quartzYielding</param>
+        <param>storeViscosity</param>
+        <param>storeStress</param>
+      </list>
+    </struct>
+    <struct name="corundum">
+      <param name="Type">RheologyMaterial</param>
+      <param name="Shape">corundumShape</param>
+      <param name="density">1890</param>
+      <list name="Rheology">
+        <param>corundumViscosity</param>
+        <param>corundumYielding</param>
+        <param>storeViscosity</param>
+        <param>storeStress</param>
+      </list>
+    </struct>
+
+    <struct name="escapedRoutine">
+      <param name="Type">EscapedRoutine</param>
+      <param name="idealParticleCount">0</param>
+    </struct>
+    <struct name="velocityRemesher">
+      <param name="Type">StripRemesher</param>
+      <param name="mesh">mesh-linear</param>
+      <param name="meshType">regular</param>
+      <list name="dim">
+        <param>true</param>
+        <param>true</param>
+        <param>true</param>
+      </list>
+    </struct>
+    <struct name="conditionFunctions">
+      <param name="Type">StgFEM_StandardConditionFunctions</param>
+    </struct>
+
+  </struct>
+  <list name="plugins">
+    <param>Underworld_EulerDeform</param>
+    <param>Underworld_VTKOutput</param>
+  </list>
+  <param name="maxTimeSteps">5000</param>
+  <param name="outputEvery">1</param>
+  <param name="dumpEvery">1</param>
+  <param name="outputPath">./output.geomod_unstable_transform</param>
+  <param name="dim">2</param>
+  <param name="shadowDepth">1</param>
+  <param name="minX">0.0f</param>
+  <param name="minY">0.0f</param>
+  <param name="minZ">0.0f</param>
+  <param name="maxX">0.35f</param>
+  <param name="maxY">0.03f</param>
+  <param name="maxZ">1.0f</param>
+  <param name="elementResI">128</param>
+  <param name="elementResJ">16</param>
+  <param name="elementResK">4</param>
+  <param name="allowUnbalancing">True</param>
+  <param name="buildNodeNeighbourTbl">True</param>
+  <param name="buildElementNeighbourTbl">True</param>
+  <param name="particlesPerCell">30</param>
+  <param name="seed">13</param>
+  <param name="gaussParticlesX">2</param>
+  <param name="gaussParticlesY">2</param>
+  <param name="gaussParticlesZ">2</param>
+  <param name="particlesPerCell">30</param>
+  <struct name="EulerDeform">
+    <list name="systems">
+      <struct>
+        <param name="mesh">mesh-linear</param>
+        <param name="remesher">velocityRemesher</param>
+        <param name="velocityField">VelocityField</param>
+        <param name="wrapTop">True</param>
+        <param name="floatRightTop">True</param>
+        <list name="fields">
+          <struct>
+            <param name="field">VelocityField</param>
+            <param name="variable">velocity</param>
+          </struct>
+          <struct>
+            <param name="field">PressureField</param>
+            <param name="variable">pressure</param>
+          </struct>
+        </list>
+      </struct>
+    </list>
+  </struct>
+  <struct name="velocityBCs">
+    <param name="type">CompositeVC</param>
+    <list name="vcList">
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">front</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vz</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">back</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vz</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">left</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vx</param>
+            <param name="type">double</param>
+            <!-- 2.5 cm/hr -->
+            <param name="value">6.94444444444e4</param>
+<!--             <param name="value">6.94444444444e-6</param> -->
+          </struct>
+          <struct>
+            <param name="name">vy</param>
+            <param name="type">double</param>
+            <param name="value">0.0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">bottom</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vx</param>
+            <param name="type">double</param>
+            <param name="value">6.94444444444e4</param>
+<!--             <param name="value">6.94444444444e-6</param> -->
+          </struct>
+          <struct>
+            <param name="name">vy</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+      <struct>
+        <param name="type">WallVC</param>
+        <param name="wall">right</param>
+        <list name="variables">
+          <struct>
+            <param name="name">vx</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+          <struct>
+            <param name="name">vy</param>
+            <param name="type">double</param>
+            <param name="value">0</param>
+          </struct>
+        </list>
+      </struct>
+    </list>
+  </struct>
+
+  <param name="linearTolerance">1.0e-7</param>
+  <param name="nonLinearTolerance">1.0e-3</param>
+
+  <param name="journal.info">True</param>
+  <param name="journal.debug">True</param>
+  <param name="journal-level.info">2</param>
+  <param name="journal-level.debug">2</param>
+</StGermainData>



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