SingleTraceOutputModifier.cpp

/*
 
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*/
 
#include "SingleTraceOutputModifier.hpp"
#include "HeartConfig.hpp"
#include "MathsCustomFunctions.hpp"
 
void
SingleTraceOutputModifier::InitialiseAtStart(DistributedVectorFactory* pVectorFactory, const std::vector<unsigned>& rNodePermutation)
{
    // Collectively open the output directory - this might already be in place from creating the HDF5 file
    OutputFileHandler output_handler(HeartConfig::Instance()->GetOutputDirectory(), false);
 
    if (!rNodePermutation.empty()){
        //Convert to runtime permuted index
        mGlobalIndex = rNodePermutation[mGlobalIndex];
    }
    // Note that the runtime index is the one which will get archived
 
    // Only the node owner needs to proceed here
    if (pVectorFactory->IsGlobalIndexLocal(mGlobalIndex))
    {
        // Set the local index correctly
        mLocalIndex = mGlobalIndex - pVectorFactory->GetLow();
        // Open the file as new
        mFileStream = output_handler.OpenOutputFile(mFilename);
    }
}
 
void
SingleTraceOutputModifier::FinaliseAtEnd()
{
    if (mLocalIndex != UINT_MAX)
    {
        mFileStream->close();
    }
}
 
 
void
SingleTraceOutputModifier::ProcessSolutionAtTimeStep(double time, Vec solution, unsigned problemDim)
{
    if (mLocalIndex != UINT_MAX)
    {
        double* p_solution;
        VecGetArray(solution, &p_solution);  //This does not need to be collective
        (*mFileStream) << time;
        for (unsigned i=0; i<problemDim; ++i)
        {
            (*mFileStream) << "\t" << p_solution[mLocalIndex*problemDim+i];
        }
        (*mFileStream) << "\n";
        VecRestoreArray(solution, &p_solution);
 
        if (mFlushTime > 0.0 && Divides(mFlushTime, time))
        {
            mFileStream->flush();
        }
    }
}
 
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(SingleTraceOutputModifier)