FilterCheckpointCellModel.cpp

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///////////////////////////////////////////////////////////////////////////////
//
// File FilterCheckpoint.cpp
//
// For more information, please see: http://www.nektar.info
//
// The MIT License
//
// Copyright (c) 2006 Division of Applied Mathematics, Brown University (USA),
// Department of Aeronautics, Imperial College London (UK), and Scientific
// Computing and Imaging Institute, University of Utah (USA).
//
// License for the specific language governing rights and limitations under
// Permission is hereby granted, free of charge, to any person obtaining a
// copy of this software and associated documentation files (the "Software"),
// to deal in the Software without restriction, including without limitation
// the rights to use, copy, modify, merge, publish, distribute, sublicense,
// and/or sell copies of the Software, and to permit persons to whom the
// Software is furnished to do so, subject to the following conditions:
//
// The above copyright notice and this permission notice shall be included
// in all copies or substantial portions of the Software.
//
// THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
// OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
// FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
// THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
// LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
// FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
// DEALINGS IN THE SOFTWARE.
//
// Description: Outputs solution fields during time-stepping.
//
///////////////////////////////////////////////////////////////////////////////

#include <CardiacEPSolver/Filters/FilterCheckpointCellModel.h>

namespace Nektar
{
std::string FilterCheckpointCellModel::className =
        SolverUtils::GetFilterFactory().RegisterCreatorFunction(
                "CheckpointCellModel", FilterCheckpointCellModel::create);

FilterCheckpointCellModel::FilterCheckpointCellModel(
    const LibUtilities::SessionReaderSharedPtr &pSession,
    const ParamMap &pParams) :
    Filter(pSession)
{
    ParamMap::const_iterator it;

    // OutputFile
    it = pParams.find("OutputFile");
    if (it == pParams.end())
    {
        m_outputFile = m_session->GetSessionName();
    }
    else
    {
        ASSERTL0(it->second.length() > 0, "Missing parameter 'OutputFile'.");
        m_outputFile = it->second;
    }

    // OutputFrequency
    it = pParams.find("OutputFrequency");
    ASSERTL0(it != pParams.end(), "Missing parameter 'OutputFrequency'.");
    LibUtilities::Equation equ(m_session, it->second);
    m_outputFrequency = floor(equ.Evaluate());

    m_outputIndex = 0;
    m_index = 0;
    m_fld = MemoryManager<LibUtilities::FieldIO>
                ::AllocateSharedPtr(m_session->GetComm());

}

FilterCheckpointCellModel::~FilterCheckpointCellModel()
{

}

void FilterCheckpointCellModel::v_Initialise(
        const Array<OneD, const MultiRegions::ExpListSharedPtr> &pFields,
        const NekDouble &time)
{
    ASSERTL0(m_cell.get(), "Cell model has not been set by EquationSystem "
            "class. Use SetCellModel on this filter to achieve this.");

    m_index = 0;
    m_outputIndex = 0;

    v_Update(pFields, 0.0);
}

void FilterCheckpointCellModel::v_Update(
        const Array<OneD, const MultiRegions::ExpListSharedPtr> &pFields,
        const NekDouble &time)
{
    if (m_index++ % m_outputFrequency > 0)
    {
        return;
    }

    std::stringstream vOutputFilename;
    vOutputFilename << m_outputFile << "_" << m_outputIndex << ".chk";

    SpatialDomains::MeshGraphSharedPtr vGraph = pFields[0]->GetGraph();

    std::vector<LibUtilities::FieldDefinitionsSharedPtr> FieldDef
        = pFields[0]->GetFieldDefinitions();
    std::vector<std::vector<NekDouble> > FieldData(FieldDef.size());

    // copy Data into FieldData and set variable
    std::string varName;
    for(int j = 1; j < m_cell->GetNumCellVariables(); ++j)
    {
        varName = m_cell->GetCellVarName(j);

        for(int i = 0; i < FieldDef.size(); ++i)
        {
            // Retrieve data from cell model
            Array<OneD, NekDouble> data = m_cell->GetCellSolutionCoeffs(j);

            // Could do a search here to find correct variable
            FieldDef[i]->m_fields.push_back(varName);
            pFields[0]->AppendFieldData(FieldDef[i], FieldData[i], data);
        }
    }

    // Update time in field info if required
    LibUtilities::FieldMetaDataMap fieldMetaDataMap;
    fieldMetaDataMap["Time"] =  boost::lexical_cast<std::string>(time);

    m_fld->Write(vOutputFilename.str(),FieldDef,FieldData,fieldMetaDataMap);
    m_outputIndex++;
}

void FilterCheckpointCellModel::v_Finalise(
        const Array<OneD, const MultiRegions::ExpListSharedPtr> &pFields,
        const NekDouble &time)
{

}

bool FilterCheckpointCellModel::v_IsTimeDependent()
{
    return true;
}
}