AbstractPurkinjeCellFactory.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 
00030 #include "AbstractPurkinjeCellFactory.hpp"
00031 
00032 
00033 
00034 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00035 AbstractPurkinjeCellFactory<ELEMENT_DIM,SPACE_DIM>::AbstractPurkinjeCellFactory()
00036     : AbstractCardiacCellFactory<ELEMENT_DIM,SPACE_DIM>(),
00037       mpMixedDimensionMesh(NULL)
00038 {
00039 }
00040 
00041 
00042 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00043 void AbstractPurkinjeCellFactory<ELEMENT_DIM,SPACE_DIM>::SetMesh(AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>* pMesh)
00044 {
00045     mpMixedDimensionMesh = dynamic_cast<MixedDimensionMesh<ELEMENT_DIM,SPACE_DIM>*>(pMesh);
00046     if (mpMixedDimensionMesh ==NULL)
00047     {
00048         EXCEPTION("AbstractPurkinjeCellFactory must take a MixedDimensionMesh");
00049     }
00050     mLocalPurkinjeNodes.clear();
00051     for (typename MixedDimensionMesh<ELEMENT_DIM,SPACE_DIM>::CableElementIterator iter = mpMixedDimensionMesh->GetCableElementIteratorBegin();
00052           iter != mpMixedDimensionMesh->GetCableElementIteratorEnd();
00053           ++iter)
00054     {
00055         mLocalPurkinjeNodes.insert((*iter)->GetNodeGlobalIndex(0u));
00056         mLocalPurkinjeNodes.insert((*iter)->GetNodeGlobalIndex(1u));
00057     }
00058     AbstractCardiacCellFactory<ELEMENT_DIM,SPACE_DIM>::SetMesh(pMesh);
00059 }
00060 
00061 
00062 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00063 AbstractCardiacCell*  AbstractPurkinjeCellFactory<ELEMENT_DIM,SPACE_DIM>::CreatePurkinjeCellForNode(
00064     unsigned nodeIndex)
00065 {
00066     if(mLocalPurkinjeNodes.count(nodeIndex)>0)
00067     {
00068         return CreatePurkinjeCellForTissueNode(nodeIndex);
00069     }
00070     else
00071     {
00072         return new FakeBathCell(this->mpSolver, this->mpZeroStimulus);
00073     }
00074 }
00075 
00076 
00077 template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
00078 MixedDimensionMesh<ELEMENT_DIM,SPACE_DIM>* AbstractPurkinjeCellFactory<ELEMENT_DIM,SPACE_DIM>::GetMixedDimensionMesh()
00079 {
00080     if (mpMixedDimensionMesh == NULL)
00081     {
00082         EXCEPTION("The mixed dimension mesh object has not been set in the cell factory");
00083     }
00084     return mpMixedDimensionMesh;
00085 }
00086 
00088 // Explicit instantiation
00090 
00091 template class AbstractPurkinjeCellFactory<1,1>;
00092 template class AbstractPurkinjeCellFactory<2,2>;
00093 template class AbstractPurkinjeCellFactory<3,3>;
00094 template class AbstractPurkinjeCellFactory<1,2>;
00095 template class AbstractPurkinjeCellFactory<1,3>;