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Merged
alxbilger merged 8 commits into from
May 6, 2025
Merged

[Examples] Clean xml examples from folder combo/miccai2013 #11

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7f3759b
[examples] Update scene
Apr 11, 2025
f908a4b
clean example from folder xml/combo
Apr 24, 2025
e12b219
fix paths 200shellComputationAnevrism
Apr 24, 2025
1fed94f
remove comments + move LCPConstraintSolver
Apr 25, 2025
d0dcb2a
clean examples 30/04
Apr 30, 2025
304af46
fix last commit
May 5, 2025
5203979
Delete doc/Vrst2013/vrst2013.pdf
Lucas-TJ May 6, 2025
9ef2386
Delete doc/VRIPHYS2012/vriphys2012.pdf
Lucas-TJ May 6, 2025
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52 changes: 40 additions & 12 deletions examples/xml/200shellComputationAnevrism.scn
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Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,28 @@
<?xml version="1.0" ?>

<Node name="root" dt="0.04" gravity="0 -10 0">
<!-- List of plugins needed to load all components used by this scene -->
<Node name="plugins">
<RequiredPlugin name="Sofa.Component.AnimationLoop"/> <!-- Needed to use components [FreeMotionAnimationLoop] -->
<RequiredPlugin name="Sofa.Component.Constraint.Projective"/> <!-- Needed to use components [FixedProjectiveConstraint,FixedRotationProjectiveConstraint] -->
<RequiredPlugin name="Sofa.Component.Constraint.Lagrangian.Solver"/> <!-- Needed to use components [LCPConstraintSolver] -->
<RequiredPlugin name="Sofa.Component.Engine.Select"/> <!-- Needed to use components [BoxROI] -->
<RequiredPlugin name="Sofa.Component.Engine.Transform"/> <!-- Needed to use components [Vertex2Frame] -->
<RequiredPlugin name="Sofa.Component.LinearSolver.Direct"/> <!-- Needed to use components [SparseLDLSolver] -->
<RequiredPlugin name="Sofa.Component.LinearSolver.Iterative"/> <!-- Needed to use components [PCGLinearSolver] -->
<RequiredPlugin name="Sofa.Component.Mapping.Linear"/> <!-- Needed to use components [IdentityMapping] -->
<RequiredPlugin name="Sofa.Component.Mass"/> <!-- Needed to use components [UniformMass] -->
<RequiredPlugin name="Sofa.Component.ODESolver.Backward"/> <!-- Needed to use components [EulerImplicitSolver] -->
<RequiredPlugin name="Sofa.Component.SceneUtility"/> <!-- Needed to use components [InfoComponent] -->
<RequiredPlugin name="Sofa.Component.StateContainer"/> <!-- Needed to use components [MechanicalObject] -->
<RequiredPlugin name="Sofa.Component.Topology.Container.Dynamic"/> <!-- Needed to use components [TriangleSetTopologyContainer] -->
<RequiredPlugin name="Sofa.Component.Visual"/> <!-- Needed to use components [VisualStyle] -->
<RequiredPlugin name="Sofa.Component.IO.Mesh"/> <!-- Needed to use components [MeshOBJLoader] -->
<RequiredPlugin name="Sofa.GL.Component.Rendering3D"/> <!-- Needed to use components [OglModel] -->
<RequiredPlugin name="Shell"/>
</Node>



<VisualStyle displayFlags="showForceFields showVisualModels" />

Expand All @@ -9,15 +32,21 @@
<!-- <MinProximityIntersection name="Proximity" alarmDistance="0.8" contactDistance="0.5" />-->
<!-- <CollisionGroup />-->


<!--<DefaultAnimationLoop/>-->

<FreeMotionAnimationLoop computeBoundingBox="true"/>
<LCPConstraintSolver/>

<Node name="CoarseMesh">
<MeshObjLoader name="coarseMesh" filename="../mesh/aneurysm200.obj"/>
<Vertex2Frame name="coarseMeshVertex2Frame" template="Rigid" position="@coarseMesh.position" normals="@coarseMesh.normals" invertNormals="false"/>
<MeshOBJLoader name="coarseMesh" filename="../../../Shell/mesh/aneurysm200.obj"/>
<Vertex2Frame name="coarseMeshVertex2Frame" template="Rigid3" position="@coarseMesh.position" normals="@coarseMesh.normals" invertNormals="false"/>

</Node>


<Node name="TargetMesh">
<MeshObjLoader name="targetMesh" filename="../mesh/aneurysmHighRes.obj"/>
<MeshOBJLoader name="targetMesh" filename="../../../Shell/mesh/aneurysmHighRes.obj"/>
<TriangleSetTopologyContainer name="targetTopo" src="@targetMesh" />
<!-- <MechanicalObject name="targetMesh_MO" template="Vec3d"/> -->
</Node>
Expand All @@ -27,22 +56,21 @@
<Node name="Shell">
<EulerImplicitSolver />
<!--<CGLinearSolver iterations="20" tolerance="0.05" threshold="1e-20"/>-->

<PCGLinearSolver iterations="5" tolerance="0.05" preconditioners="Precond"/>
<SparseLDLSolver name="Precond"/>
<PCGLinearSolver iterations="5" tolerance="0.05" preconditioner="@Precond"/>
<SparseLDLSolver name="Precond" template="CompressedRowSparseMatrixMat3x3"/>


<TriangleSetTopologyContainer name="coarseTopo"
position="@/CoarseMesh/coarseMesh.position"
edges="@/CoarseMesh/coarseMesh.edges"
triangles="@/CoarseMesh/coarseMesh.triangles" />
<MechanicalObject name="coarseMesh_MO" template="Rigid" rest_position="@/CoarseMesh/coarseMeshVertex2Frame.frames" position="@/CoarseMesh/coarseMeshVertex2Frame.frames"/>
<MechanicalObject name="coarseMesh_MO" template="Rigid3d" rest_position="@/CoarseMesh/coarseMeshVertex2Frame.frames" position="@/CoarseMesh/coarseMeshVertex2Frame.frames"/>

<UniformMass mass="0.3 0.1 [ 0.1 0 0 , 0 0.1 0 , 0 0 0.05 ]" showAxisSizeFactor="0.03" compute_mapping_inertia="0" />
<UniformMass vertexMass="0.3 0.1 [ 0.1 0 0 , 0 0.1 0 , 0 0 0.05 ]" showAxisSizeFactor="0.03" compute_mapping_inertia="0" totalMass="1.0" />

<BoxConstraint box="-0.2 -1 -0.2 0.2 -0.8 0.2 0.4 0.3 -0.8 0.8 0.7 -0.7" />

<FixedRotationConstraint FixedZRotation="true" />
<FixedRotationProjectiveConstraint template ="Rigid3" FixedZRotation="true" />
<TriangularBendingFEMForceField name="FEM" bending="true"
youngModulus="5000000" poissonRatio="0.45" thickness="0.05" />

Expand All @@ -53,11 +81,11 @@
<TriangleSetTopologyContainer name="subTrianglesTopo"
position="@/TargetMesh/targetTopo.position" triangles="@/TargetMesh/targetTopo.triangles" />
<MechanicalObject name="subCoarse_MO" rest_position="@/TargetMesh/targetTopo.position" />
<BendingPlateMechanicalMapping printLog="1" object1="coarseMesh_MO" object2="subCoarse_MO" name="MappingShells" isMechanical="false"/>
<BendingPlateMechanicalMapping printLog="1" input="@../coarseMesh_MO" output="@subCoarse_MO" name="MappingShells" isMechanical="false"/>

<Node>
<Node name="Visu">
<OglModel name="Visual" color="red"/>
<IdentityMapping object1="subCoarse_MO" object2="Visual"/>
<IdentityMapping input="@../subCoarse_MO" output="@Visual"/>
</Node>
</Node>

Expand Down
57 changes: 43 additions & 14 deletions examples/xml/400shellComputationAnevrism.scn
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Original file line number Diff line number Diff line change
@@ -1,19 +1,48 @@
<?xml version="1.0" ?>
<Node name="root" dt="0.04" showBehaviorModels="0" showCollisionModels="0" showMappings="0" showForceFields="1" showBoundingTree="0" showVisualModels="1" gravity="0 -10 0">
<!-- <CollisionPipeline verbose="0" />-->
<Node name="root" dt="0.04" gravity="0 -10 0">
<!--Node name="root" dt="0.04" showBehaviorModels="0" showCollisionModels="0" showMappings="0" showForceFields="1" showBoundingTree="0" showVisualModels="1" gravity="0 -10 0"-->


<Node name="plugins">
<RequiredPlugin name="Sofa.Component.AnimationLoop"/> <!-- Needed to use components [FreeMotionAnimationLoop] -->
<RequiredPlugin name="Sofa.Component.Constraint.Projective"/> <!-- Needed to use components [FixedProjectiveConstraint,FixedRotationProjectiveConstraint] -->
<RequiredPlugin name="Sofa.Component.Constraint.Lagrangian.Solver"/> <!-- Needed to use components [LCPConstraintSolver] -->
<RequiredPlugin name="Sofa.Component.Engine.Select"/> <!-- Needed to use components [BoxROI] -->
<RequiredPlugin name="Sofa.Component.Engine.Transform"/> <!-- Needed to use components [Vertex2Frame] -->
<RequiredPlugin name="Sofa.Component.LinearSolver.Direct"/> <!-- Needed to use components [SparseLDLSolver] -->
<RequiredPlugin name="Sofa.Component.LinearSolver.Iterative"/> <!-- Needed to use components [PCGLinearSolver] -->
<RequiredPlugin name="Sofa.Component.Mapping.Linear"/> <!-- Needed to use components [IdentityMapping] -->
<RequiredPlugin name="Sofa.Component.Mass"/> <!-- Needed to use components [UniformMass] -->
<RequiredPlugin name="Sofa.Component.ODESolver.Backward"/> <!-- Needed to use components [EulerImplicitSolver] -->
<RequiredPlugin name="Sofa.Component.SceneUtility"/> <!-- Needed to use components [InfoComponent] -->
<RequiredPlugin name="Sofa.Component.StateContainer"/> <!-- Needed to use components [MechanicalObject] -->
<RequiredPlugin name="Sofa.Component.Topology.Container.Dynamic"/> <!-- Needed to use components [TriangleSetTopologyContainer] -->
<RequiredPlugin name="Sofa.Component.Visual"/> <!-- Needed to use components [VisualStyle] -->
<RequiredPlugin name="Sofa.Component.IO.Mesh"/> <!-- Needed to use components [MeshOBJLoader] -->
<RequiredPlugin name="Sofa.GL.Component.Rendering3D"/> <!-- Needed to use components [OglModel] -->
<RequiredPlugin name="Shell"/>
</Node>






<!-- <CollisionPipeline verbose="0" />-->
<!-- <BruteForceDetection name="N2" />-->
<!-- <CollisionResponse response="default" />-->
<!-- <MinProximityIntersection name="Proximity" alarmDistance="0.8" contactDistance="0.5" />-->
<!-- <CollisionGroup />-->

<FreeMotionAnimationLoop computeBoundingBox="true"/>
<LCPConstraintSolver/>
<Node name="CoarseMesh">
<MeshObjLoader name="coarseMesh" filename="../mesh/aneurysm400.obj"/>
<Vertex2Frame name="coarseMeshVertex2Frame" template="Rigid" position="@coarseMesh.position" normals="@coarseMesh.normals" invertNormals="false"/>
<MeshOBJLoader name="coarseMesh" filename="../../../Shell/mesh/aneurysm400.obj"/>
<Vertex2Frame name="coarseMeshVertex2Frame" template="Rigid3" position="@coarseMesh.position" normals="@coarseMesh.normals" invertNormals="false"/>
</Node>


<Node name="TargetMesh">
<MeshObjLoader name="targetMesh" filename="../mesh/aneurysmHighRes.obj"/>
<MeshOBJLoader name="targetMesh" filename="../../../Shell/mesh/aneurysmHighRes.obj"/>
<TriangleSetTopologyContainer name="targetTopo" src="@targetMesh"/>
</Node>

Expand All @@ -23,21 +52,21 @@
<EulerImplicitSolver />
<!--<CGLinearSolver iterations="20" tolerance="0.05" threshold="1e-20"/>-->

<PCGLinearSolver iterations="5" tolerance="0.05" preconditioners="Precond"/>
<SparseLDLSolver name="Precond"/>
<PCGLinearSolver iterations="5" tolerance="0.05" preconditioner="@Precond"/>
<SparseLDLSolver name="Precond" template="CompressedRowSparseMatrixMat3x3"/>


<TriangleSetTopologyContainer name="coarseTopo"
position="@/CoarseMesh/coarseMesh.position"
edges="@/CoarseMesh/coarseMesh.edges"
triangles="@/CoarseMesh/coarseMesh.triangles" />
<MechanicalObject name="coarseMesh_MO" template="Rigid" rest_position="@/CoarseMesh/coarseMeshVertex2Frame.frames" position="@/CoarseMesh/coarseMeshVertex2Frame.frames"/>
<MechanicalObject name="coarseMesh_MO" template="Rigid3" rest_position="@/CoarseMesh/coarseMeshVertex2Frame.frames" position="@/CoarseMesh/coarseMeshVertex2Frame.frames"/>

<UniformMass mass="0.3 0.1 [ 0.1 0 0 , 0 0.1 0 , 0 0 0.05 ]" showAxisSizeFactor="0.03" compute_mapping_inertia="0" />
<UniformMass vertexMass="0.3 0.1 [ 0.1 0 0 , 0 0.1 0 , 0 0 0.05 ]" showAxisSizeFactor="0.03" compute_mapping_inertia="0" />

<BoxConstraint box="-0.2 -1 -0.2 0.2 -0.8 0.2 0.4 0.3 -0.8 0.8 0.7 -0.7" />

<FixedRotationConstraint FixedZRotation="true" />
<FixedRotationProjectiveConstraint FixedZRotation="true" />
<TriangularBendingFEMForceField name="FEM" bending="true"
youngModulus="5000000" poissonRatio="0.45" thickness="0.05" />

Expand All @@ -48,11 +77,11 @@
<TriangleSetTopologyContainer name="subTrianglesTopo"
position="@/TargetMesh/targetTopo.position" triangles="@/TargetMesh/targetTopo.triangles" />
<MechanicalObject name="subCoarse_MO" rest_position="@/TargetMesh/targetTopo.position" />
<BendingPlateMechanicalMapping printLog="1" object1="coarseMesh_MO" object2="subCoarse_MO" name="MappingShells" isMechanical="false"/>
<BendingPlateMechanicalMapping printLog="1" input="@../coarseMesh_MO" output="@subCoarse_MO" name="MappingShells" isMechanical="false"/>

<Node>
<Node name="Visu">
<OglModel name="Visual" color="red"/>
<IdentityMapping object1="subCoarse_MO" object2="Visual"/>
<IdentityMapping input="@../subCoarse_MO" output="@Visual"/>
</Node>
</Node>

Expand Down
61 changes: 42 additions & 19 deletions examples/xml/600shellComputationAnevrism.scn
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,25 +1,48 @@
<?xml version="1.0" ?>
<Node name="root" dt="0.04" gravity="0 -10 0">

<VisualStyle displayFlags="showForceFields showVisualModels" />
<Node name="plugins">
<RequiredPlugin name="Sofa.Component.AnimationLoop"/> <!-- Needed to use components [FreeMotionAnimationLoop] -->
<RequiredPlugin name="Sofa.Component.Constraint.Projective"/> <!-- Needed to use components [FixedProjectiveConstraint,FixedRotationProjectiveConstraint] -->
<RequiredPlugin name="Sofa.Component.Constraint.Lagrangian.Solver"/> <!-- Needed to use components [LCPConstraintSolver] -->
<RequiredPlugin name="Sofa.Component.Engine.Select"/> <!-- Needed to use components [BoxROI] -->
<RequiredPlugin name="Sofa.Component.Engine.Transform"/> <!-- Needed to use components [Vertex2Frame] -->
<RequiredPlugin name="Sofa.Component.LinearSolver.Direct"/> <!-- Needed to use components [SparseLDLSolver] -->
<RequiredPlugin name="Sofa.Component.LinearSolver.Iterative"/> <!-- Needed to use components [PCGLinearSolver] -->
<RequiredPlugin name="Sofa.Component.Mapping.Linear"/> <!-- Needed to use components [IdentityMapping] -->
<RequiredPlugin name="Sofa.Component.Mass"/> <!-- Needed to use components [UniformMass] -->
<RequiredPlugin name="Sofa.Component.ODESolver.Backward"/> <!-- Needed to use components [EulerImplicitSolver] -->
<RequiredPlugin name="Sofa.Component.SceneUtility"/> <!-- Needed to use components [InfoComponent] -->
<RequiredPlugin name="Sofa.Component.StateContainer"/> <!-- Needed to use components [MechanicalObject] -->
<RequiredPlugin name="Sofa.Component.Topology.Container.Dynamic"/> <!-- Needed to use components [TriangleSetTopologyContainer] -->
<RequiredPlugin name="Sofa.Component.Visual"/> <!-- Needed to use components [VisualStyle] -->
<RequiredPlugin name="Sofa.Component.IO.Mesh"/> <!-- Needed to use components [MeshOBJLoader] -->
<RequiredPlugin name="Sofa.GL.Component.Rendering3D"/> <!-- Needed to use components [OglModel] -->
<RequiredPlugin name="Shell"/>
</Node>





<!-- <CollisionPipeline verbose="0" />-->

<!-- <CollisionPipeline verbose="0" />-->
<!-- <BruteForceDetection name="N2" />-->
<!-- <CollisionResponse response="default" />-->
<!-- <MinProximityIntersection name="Proximity" alarmDistance="0.8" contactDistance="0.5" />-->
<!-- <CollisionGroup />-->

<FreeMotionAnimationLoop computeBoundingBox="true"/>
<LCPConstraintSolver/>

<Node name="CoarseMesh">
<MeshObjLoader name="coarseMesh" filename="../mesh/aneurysm600.obj"/>
<Vertex2Frame name="coarseMeshVertex2Frame" template="Rigid" position="@coarseMesh.position" normals="@coarseMesh.normals" invertNormals="false"/>

<MeshOBJLoader name="coarseMesh" filename="../../../Shell/mesh/aneurysm600.obj"/>
<Vertex2Frame name="coarseMeshVertex2Frame" template="Rigid3" position="@coarseMesh.position" normals="@coarseMesh.normals" invertNormals="false"/>
</Node>


<Node name="TargetMesh">
<MeshObjLoader name="targetMesh" filename="../mesh/aneurysmHighRes.obj"/>
<TriangleSetTopologyContainer name="targetTopo" src="@targetMesh" />
<!-- <MechanicalObject name="targetMesh_MO" template="Vec3d"/> -->
<MeshOBJLoader name="targetMesh" filename="../../../Shell/mesh/aneurysmHighRes.obj"/>
<TriangleSetTopologyContainer name="targetTopo" src="@targetMesh"/>
</Node>


Expand All @@ -28,21 +51,21 @@
<EulerImplicitSolver />
<!--<CGLinearSolver iterations="20" tolerance="0.05" threshold="1e-20"/>-->

<PCGLinearSolver iterations="5" tolerance="0.05" preconditioners="Precond"/>
<SparseLDLSolver name="Precond"/>
<PCGLinearSolver iterations="5" tolerance="0.05" preconditioner="@Precond"/>
<SparseLDLSolver name="Precond" template="CompressedRowSparseMatrixMat3x3"/>


<TriangleSetTopologyContainer name="coarseTopo"
position="@/CoarseMesh/coarseMesh.position"
edges="@/CoarseMesh/coarseMesh.edges"
triangles="@/CoarseMesh/coarseMesh.triangles" />
<MechanicalObject name="coarseMesh_MO" template="Rigid" rest_position="@/CoarseMesh/coarseMeshVertex2Frame.frames" position="@/CoarseMesh/coarseMeshVertex2Frame.frames"/>
<MechanicalObject name="coarseMesh_MO" template="Rigid3" rest_position="@/CoarseMesh/coarseMeshVertex2Frame.frames" position="@/CoarseMesh/coarseMeshVertex2Frame.frames"/>

<UniformMass mass="0.3 0.1 [ 0.1 0 0 , 0 0.1 0 , 0 0 0.05 ]" showAxisSizeFactor="0.03" compute_mapping_inertia="0" />
<UniformMass vertexMass="0.3 0.1 [ 0.1 0 0 , 0 0.1 0 , 0 0 0.05 ]" showAxisSizeFactor="0.03" compute_mapping_inertia="0" />

<BoxConstraint box="-0.2 -1 -0.2 0.2 -0.8 0.2 0.4 0.3 -0.8 0.8 0.7 -0.7" />

<FixedRotationConstraint FixedZRotation="true" />
<FixedRotationProjectiveConstraint FixedZRotation="true" />
<TriangularBendingFEMForceField name="FEM" bending="true"
youngModulus="5000000" poissonRatio="0.45" thickness="0.05" />

Expand All @@ -53,13 +76,13 @@
<TriangleSetTopologyContainer name="subTrianglesTopo"
position="@/TargetMesh/targetTopo.position" triangles="@/TargetMesh/targetTopo.triangles" />
<MechanicalObject name="subCoarse_MO" rest_position="@/TargetMesh/targetTopo.position" />
<BendingPlateMechanicalMapping printLog="1" object1="coarseMesh_MO" object2="subCoarse_MO" name="MappingShells" isMechanical="false"/>
<BendingPlateMechanicalMapping printLog="1" input="@../coarseMesh_MO" output="@subCoarse_MO" name="MappingShells" isMechanical="false"/>

<Node>
<Node name="Visu">
<OglModel name="Visual" color="red"/>
<IdentityMapping object1="subCoarse_MO" object2="Visual"/>
<IdentityMapping input="@../subCoarse_MO" output="@Visual"/>
</Node>
</Node>

</Node>
</Node>
</Node>
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