VtkMeshWriter.hpp

/*

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This file is part of Chaste.

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 * 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,
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   contributors may be used to endorse or promote products derived from this
   software without specific prior written permission.

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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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*/

#ifndef VTKMESHWRITER_HPP_
#define VTKMESHWRITER_HPP_

#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 <vtkTetra.h>
#include <vtkTriangle.h>
#include <vtkLine.h>
#include <vtkUnstructuredGrid.h>
#include <vtkUnstructuredGridWriter.h>
#include <vtkXMLUnstructuredGridWriter.h>
#include <vtkXMLPUnstructuredGridWriter.h>

#include <vtkDataCompressor.h>
#include "AbstractTetrahedralMeshWriter.hpp"
#include "Version.hpp"


#include <map>

// Forward declaration prevents circular include chain
template<unsigned SPACE_DIM>
class NodesOnlyMesh;

template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class VtkMeshWriter : public AbstractTetrahedralMeshWriter<ELEMENT_DIM, SPACE_DIM>
{

//Requires  "sudo aptitude install libvtk5-dev" or similar

private:
    bool mWriteParallelFiles; 
    std::map<unsigned, unsigned> mGlobalToNodeIndexMap; 
    std::vector<std::vector<unsigned> > mNodesToSendPerProcess; 
    std::vector<std::vector<unsigned> > mNodesToReceivePerProcess;  
    NodesOnlyMesh<SPACE_DIM>* mpNodesOnlyMesh;

    vtkUnstructuredGrid* mpVtkUnstructedMesh;

    void MakeVtkMesh();

    void AugmentCellData();

public:

    VtkMeshWriter(const std::string& rDirectory, const std::string& rBaseName, const bool& rCleanDirectory=true);

    void WriteFiles();


     void AddCellData(std::string name, std::vector<double> data);

    void AddCellData(std::string name, std::vector<c_vector<double, SPACE_DIM> > data);

    void AddTensorCellData(std::string name, std::vector<c_vector<double,SPACE_DIM*(SPACE_DIM+1)/2> > data);

    void AddTensorCellData(std::string name, std::vector<c_matrix<double,SPACE_DIM,SPACE_DIM> > data);


    void AddPointData(std::string name, std::vector<double> data);

    void AddPointData(std::string name, std::vector<c_vector<double, SPACE_DIM> > data);

    void AddTensorPointData(std::string name, std::vector<c_matrix<double,SPACE_DIM,SPACE_DIM> > data);

     void SetParallelFiles(AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>& rMesh);

    void WriteFilesUsingMesh(AbstractTetrahedralMesh<ELEMENT_DIM, SPACE_DIM>& rMesh,
                                     bool keepOriginalElementIndexing=true);

    void AddProvenance(std::string fileName);

    virtual ~VtkMeshWriter();
};

#endif //CHASTE_VTK

#endif /*VTKMESHWRITER_HPP_*/