PropagationPropertiesCalculator.hpp

00001 /*
00002 
00003 Copyright (C) University of Oxford, 2005-2010
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 
00030 #ifndef _PROPAGATIONPROPERTIESCALCULATOR_HPP_
00031 #define _PROPAGATIONPROPERTIESCALCULATOR_HPP_
00032 
00033 #include "Hdf5DataReader.hpp"
00034 
00035 #include <string>
00044 class PropagationPropertiesCalculator
00045 {
00046 private:
00048     Hdf5DataReader *mpDataReader;
00050     const std::string mVoltageName;
00051 
00052 public:
00060     PropagationPropertiesCalculator(Hdf5DataReader* pDataReader,
00061                                     const std::string voltageName = "V");
00062     virtual ~PropagationPropertiesCalculator();
00063 
00070     double CalculateMaximumUpstrokeVelocity(unsigned globalNodeIndex);
00071 
00079     std::vector<double> CalculateAllMaximumUpstrokeVelocities(unsigned globalNodeIndex, double threshold);
00080 
00088     std::vector<double> CalculateUpstrokeTimes(unsigned globalNodeIndex, double threshold);
00089 
00102     double CalculateConductionVelocity(unsigned globalNearNodeIndex,
00103                                        unsigned globalFarNodeIndex,
00104                                        const double euclideanDistance);
00105 
00118      std::vector<double> CalculateAllConductionVelocities(unsigned globalNearNodeIndex,
00119                                                           unsigned globalFarNodeIndex,
00120                                                           const double euclideanDistance);
00128     double CalculateActionPotentialDuration(const double percentage,
00129                                             unsigned globalNodeIndex);
00137     double CalculatePeakMembranePotential(unsigned globalNodeIndex);
00138 
00146     std::vector<double> CalculateAllActionPotentialDurations(const double percentage,
00147                                                              unsigned globalNodeIndex,
00148                                                              double threshold);
00156     std::vector<unsigned> CalculateAllAboveThresholdDepolarisations(unsigned globalNodeIndex,
00157                                                                     double threshold);
00158 
00166     unsigned CalculateAboveThresholdDepolarisationsForLastAp(unsigned globalNodeIndex,
00167                                                                     double threshold);
00168 
00169 };
00170 
00171 #endif //_PROPAGATIONPROPERTIESCALCULATOR_HPP_

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