AbstractCryptStatistics.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 #include "AbstractCryptStatistics.hpp"
00029 #include "CellPropertyRegistry.hpp"
00030 
00031 AbstractCryptStatistics::AbstractCryptStatistics(MeshBasedCellPopulation<2>& rCrypt)
00032     : mrCrypt(rCrypt)
00033 {
00034 }
00035 
00036 AbstractCryptStatistics::~AbstractCryptStatistics()
00037 {
00038 }
00039 
00040 void AbstractCryptStatistics::LabelSPhaseCells()
00041 {
00042     for (AbstractCellPopulation<2>::Iterator cell_iter = mrCrypt.Begin();
00043          cell_iter != mrCrypt.End();
00044          ++cell_iter)
00045     {
00046         if (cell_iter->GetCellCycleModel()->GetCurrentCellCyclePhase()== S_PHASE)
00047         {
00048             // This should only be done for wild type cells (at the moment anyway)
00049             assert(cell_iter->GetMutationState()->IsType<WildTypeCellMutationState>());
00050 
00051             // Label this cell
00052             if (!cell_iter->HasCellProperty<CellLabel>());
00053             {
00054                 cell_iter->AddCellProperty(CellPropertyRegistry::Instance()->Get<CellLabel>());
00055             }
00056         }
00057     }
00058 }
00059 
00060 void AbstractCryptStatistics::LabelAllCellsAsHealthy()
00061 {
00062     for (AbstractCellPopulation<2>::Iterator cell_iter = mrCrypt.Begin();
00063          cell_iter != mrCrypt.End();
00064          ++cell_iter)
00065     {
00066         cell_iter->SetMutationState(CellPropertyRegistry::Instance()->Get<WildTypeCellMutationState>());
00067         cell_iter->RemoveCellProperty<CellLabel>();
00068     }
00069 }
00070 
00071 std::vector<bool> AbstractCryptStatistics::AreCryptSectionCellsLabelled(std::vector<CellPtr>& rCryptSection)
00072 {
00073     std::vector<bool> crypt_section_labelled(rCryptSection.size());
00074 
00075     for (unsigned vector_index=0; vector_index<rCryptSection.size(); vector_index++)
00076     {
00077         if (rCryptSection[vector_index]->HasCellProperty<CellLabel>())
00078         {
00079             crypt_section_labelled[vector_index] = true;
00080         }
00081         else
00082         {
00083             crypt_section_labelled[vector_index] = false;
00084         }
00085     }
00086 
00087     return crypt_section_labelled;
00088 }

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