ExtendedBidomainMassMatrixAssembler.cpp

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 #include "ExtendedBidomainMassMatrixAssembler.hpp"
00030 #include "HeartRegionCodes.hpp"
00031 
00032 
00033 template<unsigned DIM>
00034 c_matrix<double,3*(DIM+1),3*(DIM+1)> ExtendedBidomainMassMatrixAssembler<DIM>::ComputeMatrixTerm(
00035             c_vector<double, DIM+1> &rPhi,
00036             c_matrix<double, DIM, DIM+1> &rGradPhi,
00037             ChastePoint<DIM> &rX,
00038             c_vector<double,3> &rU,
00039             c_matrix<double,3,DIM> &rGradU /* not used */,
00040             Element<DIM,DIM>* pElement)
00041 {
00042 
00043     c_matrix<double,3*(DIM+1),3*(DIM+1)> ret = zero_matrix<double>(3*(DIM+1),3*(DIM+1));
00044 
00045     if (!HeartRegionCode::IsRegionBath( pElement->GetRegion() )) // ie if a tissue element
00046     {
00047         c_matrix<double, DIM+1, DIM+1> basis_outer_prod = outer_prod(rPhi, rPhi);
00048 
00049         // first row,  first column
00050         matrix_slice<c_matrix<double, 3*DIM+3, 3*DIM+3> >
00051         slice00(ret, slice (0, 3, DIM+1), slice (0, 3, DIM+1));
00052         slice00 =  basis_outer_prod;
00053 
00054         // second row, second column
00055         matrix_slice<c_matrix<double, 3*DIM+3, 3*DIM+3> >
00056         slice11(ret, slice (1, 3, DIM+1), slice (1, 3, DIM+1));
00057         slice11 = basis_outer_prod;
00058 
00059         // third row, third column
00060         matrix_slice<c_matrix<double, 3*DIM+3, 3*DIM+3> >
00061         slice22(ret, slice (2, 3, DIM+1), slice (2, 3, DIM+1));
00062         slice22 = basis_outer_prod;
00063     }
00064     return ret;
00065 }
00066 
00067 
00068 
00070 // explicit instantiation
00072 
00073 template class ExtendedBidomainMassMatrixAssembler<1>;
00074 template class ExtendedBidomainMassMatrixAssembler<2>;
00075 template class ExtendedBidomainMassMatrixAssembler<3>;