PostProcessingWriter.hpp

00001 /*
00002 
00003 Copyright (C) University of Oxford, 2005-2011
00004 
00005 University of Oxford means the Chancellor, Masters and Scholars of the
00006 University of Oxford, having an administrative office at Wellington
00007 Square, Oxford OX1 2JD, UK.
00008 
00009 This file is part of Chaste.
00010 
00011 Chaste is free software: you can redistribute it and/or modify it
00012 under the terms of the GNU Lesser General Public License as published
00013 by the Free Software Foundation, either version 2.1 of the License, or
00014 (at your option) any later version.
00015 
00016 Chaste is distributed in the hope that it will be useful, but WITHOUT
00017 ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
00018 FITNESS FOR A PARTICULAR PURPOSE.  See the GNU Lesser General Public
00019 License for more details. The offer of Chaste under the terms of the
00020 License is subject to the License being interpreted in accordance with
00021 English Law and subject to any action against the University of Oxford
00022 being under the jurisdiction of the English Courts.
00023 
00024 You should have received a copy of the GNU Lesser General Public License
00025 along with Chaste. If not, see <http://www.gnu.org/licenses/>.
00026 
00027 */
00028 
00029 #ifndef POSTPROCESSINGWRITER_HPP_
00030 #define POSTPROCESSINGWRITER_HPP_
00031 
00032 
00033 #include "Hdf5DataReader.hpp"
00034 #include "PropagationPropertiesCalculator.hpp"
00035 #include "AbstractTetrahedralMesh.hpp"
00036 #include <string>
00037 
00046 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00047 class PostProcessingWriter
00048 {
00049     friend class TestPostProcessingWriter;
00050 
00051 private:
00052     std::string mDirectory; 
00053     std::string mHdf5File; 
00054     bool mMakeAbsolute; 
00055     std::string mVoltageName; 
00057     Hdf5DataReader* mpDataReader; 
00058     PropagationPropertiesCalculator* mpCalculator; 
00059     unsigned mLo; 
00060     unsigned mHi; 
00061     AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>& mrMesh;
00063 public:
00074     PostProcessingWriter(AbstractTetrahedralMesh<ELEMENT_DIM, SPACE_DIM>& rMesh, std::string directory, std::string hdf5File, bool makeAbsolute, std::string voltageName = "V");
00075 
00080     void WritePostProcessingFiles();
00081 
00085     ~PostProcessingWriter();
00086 
00102     void WriteAboveThresholdDepolarisationFile(double threshold);
00103 
00104 private:
00105 
00131     void WriteVariablesOverTimeAtNodes(std::vector<unsigned>& rNodeIndices);
00132 
00145     void WriteApdMapFile(double repolarisationPercentage, double threshold);
00146 
00147 
00159     void WriteUpstrokeTimeMap(double threshold);
00160 
00172     void WriteMaxUpstrokeVelocityMap(double threshold);
00173 
00186     void WriteConductionVelocityMap(unsigned originNode, std::vector<double> distancesFromOriginNode);
00195     void WriteGenericFile(std::vector<std::vector<double> >& rDataPayload, std::string fileName);
00196 
00197 };
00198 
00199 #endif /*POSTPROCESSINGWRITER_HPP_*/

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