VertexMeshWriter.hpp

/*

Copyright (c) 2005-2017, University of Oxford.
All rights reserved.

University of Oxford means the Chancellor, Masters and Scholars of the
University of Oxford, having an administrative office at Wellington
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This file is part of Chaste.

Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
 * Redistributions of source code must retain the above copyright notice,
   this list of conditions and the following disclaimer.
 * Redistributions in binary form must reproduce the above copyright notice,
   this list of conditions and the following disclaimer in the documentation
   and/or other materials provided with the distribution.
 * Neither the name of the University of Oxford nor the names of its
   contributors may be used to endorse or promote products derived from this
   software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
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LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

*/
#ifndef VERTEXMESHWRITER_HPP_
#define VERTEXMESHWRITER_HPP_

// Forward declaration prevents circular include chain
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class VertexMesh;

#ifdef CHASTE_VTK
//Requires  "sudo aptitude install libvtk5-dev" or similar
#define _BACKWARD_BACKWARD_WARNING_H 1 //Cut out the strstream deprecated warning for now (gcc4.3)
#include <vtkDoubleArray.h>
#include <vtkCellData.h>
#include <vtkPointData.h>
#include <vtkConvexPointSet.h>
#include <vtkPolygon.h>
#include <vtkUnstructuredGrid.h>
#include <vtkUnstructuredGridWriter.h>
#include <vtkXMLUnstructuredGridWriter.h>
#include <vtkDataCompressor.h>
#endif //CHASTE_VTK

#include "VertexMesh.hpp"
#include "AbstractMeshWriter.hpp"
#include "NodeMap.hpp"

// Forward declaration prevents circular include chain
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class VertexMesh;

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
struct MeshWriterIterators;

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class VertexMeshWriter : public AbstractMeshWriter<ELEMENT_DIM, SPACE_DIM>
{
private:
    VertexMesh<ELEMENT_DIM,SPACE_DIM>* mpMesh;

    MeshWriterIterators<ELEMENT_DIM,SPACE_DIM>* mpIters;

    NodeMap* mpNodeMap;
    unsigned mNodeMapCurrentIndex;

#ifdef CHASTE_VTK
//Requires  "sudo aptitude install libvtk5-dev" or similar
    vtkUnstructuredGrid* mpVtkUnstructedMesh;
#endif //CHASTE_VTK

public:

    VertexMeshWriter(const std::string& rDirectory,
                     const std::string& rBaseName,
                     const bool clearOutputDir=true);

    ~VertexMeshWriter();


    void WriteFilesUsingMesh(VertexMesh<ELEMENT_DIM, SPACE_DIM>& rMesh);

    void WriteVtkUsingMesh(VertexMesh<ELEMENT_DIM, SPACE_DIM>& rMesh, std::string stamp="");

    void MakeVtkMesh(VertexMesh<ELEMENT_DIM, SPACE_DIM>& rMesh);

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

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

    std::vector<double> GetNextNode();

    ElementData GetNextElement();

    VertexElementData GetNextElementWithFaces();

    void WriteFiles();
};

#endif /*VERTEXMESHWRITER_HPP_*/