VtkMeshReader.hpp

/*

Copyright (C) Fujitsu Laboratories of Europe, 2009

*/

/*

Copyright (c) 2005-2015, 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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HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
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 VTKMESHREADER_HPP_
#define VTKMESHREADER_HPP_

#include <vector>
#include <string>
#include <fstream>
#include <sstream>
#include <cassert>

#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 <vtkDataArray.h>
#include <vtkDoubleArray.h>
#include <vtkCellData.h>
#include <vtkPointData.h>
#include <vtkTetra.h>
#include <vtkUnstructuredGrid.h>
#include <vtkUnstructuredGridReader.h>
#include <vtkXMLUnstructuredGridReader.h>
#include <vtkGeometryFilter.h>
#include <vtkGenericGeometryFilter.h>
#include <vtkDataCompressor.h>
#include <vtkFeatureEdges.h>
#include <vtkDataSetSurfaceFilter.h>
#include <vtkSmartPointer.h>


#include "UblasVectorInclude.hpp"
#include "AbstractMeshReader.hpp"

template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class VtkMeshReader : public AbstractMeshReader<ELEMENT_DIM, SPACE_DIM>
{
private:

    vtkSmartPointer<vtkUnstructuredGrid> mpVtkUnstructuredGrid; //This is a smart pointer to keep Vtk from deleting the object in the 1D case

    vtkGeometryFilter* mpVtkGeometryFilter;

    vtkFeatureEdges* mpVtkFilterEdges;

    bool mIndexFromZero;             
    std::ifstream mVtuFile;            
    unsigned mNumNodes;                
    unsigned mNumElements;            
    unsigned mNumFaces;                
    unsigned mNumCableElements;     
    unsigned mNodesRead;            
    unsigned mElementsRead;            
    unsigned mFacesRead;            
    unsigned mBoundaryFacesRead;    
    unsigned mBoundaryFacesSkipped; 
    unsigned mCableElementsRead;    
    unsigned mNumNodeAttributes;    
    unsigned mMaxNodeBdyMarker;     
    unsigned mNumElementAttributes; 
    unsigned mNumFaceAttributes;    
    unsigned mNumCableElementAttributes; 
    unsigned mOrderOfElements;      
    unsigned mNodesPerElement;      
    int mVtkCellType;               
    void CommonConstructor();

public:

    VtkMeshReader(std::string pathBaseName);

    VtkMeshReader(vtkUnstructuredGrid* p_vtkUnstructuredGrid);

    virtual ~VtkMeshReader();

    unsigned GetNumElements() const;

    unsigned GetNumCableElements() const;

    unsigned GetNumNodes() const;

    unsigned GetNumFaces() const;

    unsigned GetNumEdges() const;

    unsigned GetNumElementAttributes() const;

    unsigned GetNumCableElementAttributes() const;

    unsigned GetNumFaceAttributes() const;

    void Reset();

    void Initialize();

    std::vector<double> GetNextNode();

    ElementData GetNextElementData();

    ElementData GetNextFaceData();

    ElementData GetNextCableElementData();


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

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

     void GetCellData(std::string dataName, std::vector<c_vector<double,SPACE_DIM> >& dataPayload);

    void GetPointData(std::string dataName, std::vector<c_vector<double,SPACE_DIM> >& dataPayload);

    vtkUnstructuredGrid* OutputMeshAsVtkUnstructuredGrid();

};

#endif/*CHASTE_VTK*/

#endif/*VTKMESHREADER_HPP_*/