VtkNonlinearElasticitySolutionWriter.cpp

/*

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*/

#include "VtkNonlinearElasticitySolutionWriter.hpp"
#include "VtkMeshWriter.hpp"

template<unsigned DIM>
void VtkNonlinearElasticitySolutionWriter<DIM>::Write()
{
    if (mpSolver->mOutputDirectory=="")
    {
        EXCEPTION("No output directory was given to the mechanics solver");
    }

#ifdef CHASTE_VTK
    VtkMeshWriter<DIM, DIM> mesh_writer(mpSolver->mOutputDirectory + "/vtk", "solution", true);

    // write the displacement
    std::vector<c_vector<double,DIM> > displacement(mpSolver->mrQuadMesh.GetNumNodes());
    std::vector<c_vector<double,DIM> >& r_spatial_solution = mpSolver->rGetSpatialSolution();
    for (unsigned i=0; i<mpSolver->mrQuadMesh.GetNumNodes(); i++)
    {
        for (unsigned j=0; j<DIM; j++)
        {
            displacement[i](j) = r_spatial_solution[i](j)- mpSolver->mrQuadMesh.GetNode(i)->rGetLocation()[j];
        }
    }
    mesh_writer.AddPointData("Displacement", displacement);

    // write pressures
    if (mpSolver->mCompressibilityType==INCOMPRESSIBLE)
    {
        mesh_writer.AddPointData("Pressure", mpSolver->rGetPressures());
    }

    // write the element attribute as cell data.
    std::vector<double> element_attribute;
    for (typename QuadraticMesh<DIM>::ElementIterator iter = mpSolver->mrQuadMesh.GetElementIteratorBegin();
        iter != mpSolver->mrQuadMesh.GetElementIteratorEnd();
        ++iter)
    {
        element_attribute.push_back(iter->GetAttribute());
    }
    mesh_writer.AddCellData("Attribute", element_attribute);

    // write strains if requested
    if (mWriteElementWiseStrains)
    {
        mTensorData.clear();
        mTensorData.resize(mpSolver->mrQuadMesh.GetNumElements());

        std::string name;
        switch(mElementWiseStrainType)
        {
            case DEFORMATION_GRADIENT_F:
            {
                name = "deformation_gradient_F";
                break;
            }
            case DEFORMATION_TENSOR_C:
            {
                name = "deformation_tensor_C";
                break;
            }
            case LAGRANGE_STRAIN_E:
            {
                name = "Lagrange_strain_E";
                break;
            }
            default:
            {
                NEVER_REACHED;
            }
        }

        for (typename AbstractTetrahedralMesh<DIM,DIM>::ElementIterator iter = mpSolver->mrQuadMesh.GetElementIteratorBegin();
             iter != mpSolver->mrQuadMesh.GetElementIteratorEnd();
             ++iter)
        {
            mpSolver->GetElementCentroidStrain(mElementWiseStrainType, *iter, mTensorData[iter->GetIndex()]);
        }

        mesh_writer.AddTensorCellData(name, mTensorData);
    }
//        if (mWriteNodeWiseStresses)
//        {
//            std::vector<c_matrix<double,DIM,DIM> > tensor_data;
//            // use recoverer
//            mesh_writer.AddTensorCellData("Stress_NAME_ME", tensor_data);
//        }

    // final write
    mesh_writer.WriteFilesUsingMesh(mpSolver->mrQuadMesh);
#endif // CHASTE_VTK
}

// Explicit instantiation
template class VtkNonlinearElasticitySolutionWriter<2>;
template class VtkNonlinearElasticitySolutionWriter<3>;