Chaste Release::3.1
MonodomainAssembler.cpp
00001 /*
00002 
00003 Copyright (c) 2005-2012, 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:
00014  * Redistributions of source code must retain the above copyright notice,
00015    this list of conditions and the following disclaimer.
00016  * Redistributions in binary form must reproduce the above copyright notice,
00017    this list of conditions and the following disclaimer in the documentation
00018    and/or other materials provided with the distribution.
00019  * Neither the name of the University of Oxford nor the names of its
00020    contributors may be used to endorse or promote products derived from this
00021    software without specific prior written permission.
00022 
00023 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
00024 AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
00025 IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
00026 ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
00027 LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
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00029 GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
00030 HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
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00032 OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
00033 
00034 */
00035 
00036 #ifndef MONODOMAINASSEMBLER_CPP_
00037 #define MONODOMAINASSEMBLER_CPP_
00038 
00039 #include "MonodomainAssembler.hpp"
00040 #include "PdeSimulationTime.hpp"
00041 
00042 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00043 c_matrix<double,1*(ELEMENT_DIM+1),1*(ELEMENT_DIM+1)> MonodomainAssembler<ELEMENT_DIM,SPACE_DIM>::ComputeMatrixTerm(
00044                 c_vector<double, ELEMENT_DIM+1> &rPhi,
00045                 c_matrix<double, SPACE_DIM, ELEMENT_DIM+1> &rGradPhi,
00046                 ChastePoint<SPACE_DIM> &rX,
00047                 c_vector<double,1> &rU,
00048                 c_matrix<double, 1, SPACE_DIM> &rGradU /* not used */,
00049                 Element<ELEMENT_DIM,SPACE_DIM>* pElement)
00050 {
00052     return (PdeSimulationTime::GetPdeTimeStepInverse())*mMassMatrixAssembler.ComputeMatrixTerm(rPhi,rGradPhi,rX,rU,rGradU,pElement)
00053             + mStiffnessMatrixAssembler.ComputeMatrixTerm(rPhi,rGradPhi,rX,rU,rGradU,pElement);
00054 }
00055 
00056 
00057 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00058 MonodomainAssembler<ELEMENT_DIM,SPACE_DIM>::MonodomainAssembler(
00059                         AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>* pMesh,
00060                         MonodomainTissue<ELEMENT_DIM,SPACE_DIM>* pTissue,
00061                         unsigned numQuadPoints)
00062     : AbstractCardiacFeVolumeIntegralAssembler<ELEMENT_DIM,SPACE_DIM,1,false,true,CARDIAC>(pMesh,pTissue,numQuadPoints),
00063       mMassMatrixAssembler(pMesh, HeartConfig::Instance()->GetUseMassLumping(),
00064                            HeartConfig::Instance()->GetSurfaceAreaToVolumeRatio()*HeartConfig::Instance()->GetCapacitance()),
00065       mStiffnessMatrixAssembler(pMesh, pTissue)
00066 {
00067     assert(pTissue);
00068     mpConfig = HeartConfig::Instance();
00069 }
00070 
00071 
00072 
00074 // explicit instantiation
00076 
00077 
00078 template class MonodomainAssembler<1,1>;
00079 template class MonodomainAssembler<1,2>;
00080 template class MonodomainAssembler<1,3>;
00081 template class MonodomainAssembler<2,2>;
00082 template class MonodomainAssembler<3,3>;
00083 
00084 #endif /*MONODOMAINASSEMBLER_CPP_*/