AdaptiveTetrahedralMesh.hpp

/*

Copyright (C) Fujitsu Laboratories of Europe, 2009-2010

*/

/*

Copyright (C) University of Oxford, 2005-2011

University of Oxford means the Chancellor, Masters and Scholars of the
University of Oxford, having an administrative office at Wellington
Square, Oxford OX1 2JD, UK.

This file is part of Chaste.

Chaste is free software: you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License as published
by the Free Software Foundation, either version 2.1 of the License, or
(at your option) any later version.

Chaste is distributed in the hope that it will be useful, but WITHOUT
ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
FITNESS FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public
License for more details. The offer of Chaste under the terms of the
License is subject to the License being interpreted in accordance with
English Law and subject to any action against the University of Oxford
being under the jurisdiction of the English Courts.

You should have received a copy of the GNU Lesser General Public License
along with Chaste. If not, see <http://www.gnu.org/licenses/>.

*/



#ifndef ADAPTIVETETRAHEDRALMESH_HPP_
#define ADAPTIVETETRAHEDRALMESH_HPP_

#define CXXBLAS_H    // This stops multiple definition of blas headers (one via Chaste, one via libadaptivity/include/cxxblas.h)
                    // Might break things, no idea, will keep it here until problems appear....


#ifdef CHASTE_VTK
#define _BACKWARD_BACKWARD_WARNING_H 1 //Cut out the strstream deprecated warning for now (gcc4.3)

#ifdef CHASTE_ADAPTIVITY
#define HAVE_VTK // Tell libadaptivity that we are using VTK

#include "AbstractTetrahedralMesh.hpp"
#include "DistributedTetrahedralMesh.hpp"

// Include libadaptivity header files.
// Need to add $LIBADAPTIVITY_DIR/include/ to the include path.
#include "vtk.h"
#include "../metric_field/include/DiscreteGeometryConstraints.h"
#include "../metric_field/include/ErrorMeasure.h"
#include "../adapt3d/include/Adaptivity.h"

class AdaptiveTetrahedralMesh
{
    friend class TestAdaptivityLibrary;
    friend class TestAdaptiveTetrahedralMesh;
    friend class TestAdaptiveTetrahedralMeshLargeMeshes;

private:
    vtkUnstructuredGrid *mpVtkUnstructuredGrid;

    unsigned mNumNodes;

    unsigned mNumElements;

    unsigned mNumLocalNodes;

    bool mAdaptSuccess;

    DiscreteGeometryConstraints* mpDiscreteGeometryConstraints;
    ErrorMeasure* mpErrorMeasure;
    Adaptivity* mpAdapt;

    std::vector<int> SENList;
    std::vector<int> sids;
    std::vector<double> max_len;

    double mGoodEdgeRange;

    double mBadEdgeCriterion;

    bool mVerbose;

public:

    AdaptiveTetrahedralMesh();

    ~AdaptiveTetrahedralMesh();

    void ConstructFromVtuFile(std::string fileName);

    void ConstructFromMesh(AbstractTetrahedralMesh<3,3>* rMesh);

    void ConstructFromDistributedMesh(DistributedTetrahedralMesh<3,3>* rMesh);

    void AddPointData(std::string dataName, std::vector<double> dataPayload);

    void AddPointData(std::string dataName, std::vector<unsigned> dataPayload);

    void RemoveArray(std::string dataName);

    void WriteMeshToFile(std::string directory, std::string fileName);

    void WriteMeshToDistributedFile(std::string directory, std::string fileName);

    vtkUnstructuredGrid* GetVtkUnstructuredGrid();

    void SetAdaptCriterion(double range, double criterion);

    unsigned GetNumNodes();

    unsigned GetNumLocalNodes();

    unsigned GetNumLocalAndHaloNodes();

    unsigned GetNumElements();

    unsigned GetNumLocalElements();

    unsigned GetNumSurfaceElements();

    void CalculateSENListAndSids(double coplanarTolerance = 0.9999999);

    double GetEdgeLengthDistribution(double range);

    void AdaptMesh();

    void Reset();

    bool GetAdaptSuccess();

    void MakeVerbose(bool verbose=true);


protected:
    void GetGeometryConstraints();

    void CalculateErrorMetric();

    void Adapt();
};
#endif /*CHASTE_ADAPTIVITY */
#endif /*CHASTE_VTK */

#endif /*ADAPTIVETETRAHEDRALMESH_HPP_*/