ActivationOutputModifier.hpp

00001 /*
00002 
00003 Copyright (c) 2005-2015, University of Oxford.
00004 All rights reserved.
00005 
00006 University of Oxford means the Chancellor, Masters and Scholars of the
00007 University of Oxford, having an administrative office at Wellington
00008 Square, Oxford OX1 2JD, UK.
00009 
00010 This file is part of Chaste.
00011 
00012 Redistribution and use in source and binary forms, with or without
00013 modification, are permitted provided that the following conditions are met:
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00015    this list of conditions and the following disclaimer.
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00023 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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00034 */
00035 
00036 #ifndef ACTIVATIONOUTPUTMODIFIER_HPP_
00037 #define ACTIVATIONOUTPUTMODIFIER_HPP_
00038 
00039 #include "AbstractOutputModifier.hpp"
00040 #include <boost/serialization/base_object.hpp>
00041 #include <boost/serialization/vector.hpp>
00042 
00061 class ActivationOutputModifier : public AbstractOutputModifier
00062 {
00063 private:
00064     double mThreshold; 
00065     unsigned mLocalSize; 
00066     std::vector<double> mFirstActivitationTimes; 
00067     std::vector<double> mFirstRecoveryTimes; 
00068     std::vector<double> mSecondActivitationTimes; 
00069     std::vector<double> mSecondRecoveryTimes; 
00071     friend class TestOutputModifiers;
00072 
00074     friend class boost::serialization::access;
00075 
00076     template<class Archive>
00077     void serialize(Archive & archive, const unsigned int version)
00078     {
00079         // This calls serialize on the base class.
00080         archive & boost::serialization::base_object<AbstractOutputModifier>(*this);
00081         archive & mThreshold;
00082         // Other private data are re-initialised in a process-specific manner
00083     }
00084 
00086     ActivationOutputModifier()
00087     {}
00088 
00089 public:
00098     ActivationOutputModifier(const std::string& rFilename, double threshold)
00099         : AbstractOutputModifier(rFilename),
00100           mThreshold(threshold)
00101     {
00102     }
00103 
00111     virtual void InitialiseAtStart(DistributedVectorFactory* pVectorFactory);
00112 
00116     virtual void FinaliseAtEnd();
00117 
00124     virtual void ProcessSolutionAtTimeStep(double time, Vec solution, unsigned problemDim);
00125 };
00126 
00127 #include "SerializationExportWrapper.hpp"
00128 CHASTE_CLASS_EXPORT(ActivationOutputModifier)
00129 
00130 #endif /* ACTIVATIONOUTPUTMODIFIER_HPP_ */

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