parMetis.C

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    This file is part of OpenFOAM.
 
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#include "parMetis.H"
#include "Time.H"
#include "globalIndex.H"
#include "labelIOField.H"
#include "PstreamGlobals.H"
#include "addToRunTimeSelectionTable.H"
 
 
// * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
namespace Foam
{
namespace decompositionMethods
{
    defineTypeNameAndDebug(parMetis, 0);
 
    addToRunTimeSelectionTable
    (
        decompositionMethod,
        parMetis,
        distributor
    );
}
}
 
 
// * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 
Foam::label Foam::decompositionMethods::parMetis::decompose
(
    const labelList& xadj,
    const labelList& adjncy,
    const pointField& cellCentres,
    const label nWeights,
    const labelList& cellWeights,
    const labelList& faceWeights,
    labelList& decomp
)
{
    // C style numbering
    label numFlag = 0;
 
    List<real_t> processorWeights;
 
    if (processorWeights_.size())
    {
        if (processorWeights_.size() != nWeights*nProcessors_)
        {
            FatalErrorInFunction
                << "Number of processor weights specified in parMetisCoeffs "
                << processorWeights_.size()
                << " does not equal number of constraints * number of domains "
                << nWeights*nProcessors_
                << exit(FatalError);
        }
 
        processorWeights = processorWeights_;
    }
    else
    {
        processorWeights.setSize(nWeights*nProcessors_, 1.0/nProcessors_);
    }
 
    // Imbalance tolerance
    List<real_t> ubvec(nWeights, 1.02);
 
    // If only one processor there is no imbalance
    if (nProcessors_ == 1)
    {
        ubvec[0] = 1;
    }
 
    // Distribute to all processors the number of cells on each processor
    globalIndex globalMap(cellCentres.size());
 
    // Get the processor-cell offset table
    labelList cellOffsets(globalMap.offsets());
 
    // Weight info
    label wgtFlag = 0;
    const label* vwgtPtr = nullptr;
    const label* adjwgtPtr = nullptr;
 
    // Weights on vertices of graph (cells)
    if (cellWeights.size())
    {
        vwgtPtr = cellWeights.begin();
        wgtFlag += 2;
    }
 
    // Weights on edges of graph (faces)
    if (faceWeights.size())
    {
        adjwgtPtr = faceWeights.begin();
        wgtFlag += 1;
    }
 
    // Set the list of valid processors,
    // i.e. processors with non-zero number of cells
    labelList validProcs(Pstream::nProcs());
    labelList validCellOffsets(cellOffsets);
    label nValidProcs = 0;
 
    for(label proci=0; proci<Pstream::nProcs(); proci++)
    {
        if (cellOffsets[proci + 1] - cellOffsets[proci] > 0)
        {
            validProcs[nValidProcs] = proci;
            validCellOffsets[nValidProcs] = validCellOffsets[proci];
            nValidProcs++;
        }
    }
    validProcs.setSize(nValidProcs);
    validCellOffsets[nValidProcs] = validCellOffsets[Pstream::nProcs()];
 
    // Initialise the communicator index to worldComm
    label commi = UPstream::worldComm;
 
    // If there any processors with zero cells create a communicator
    // for the sub-set of processors containing cells
    if (nValidProcs != Pstream::nProcs())
    {
        commi = Pstream::allocateCommunicator(UPstream::worldComm, validProcs);
    }
 
    // Lookup the MPI communicator for the current communicator index
    MPI_Comm comm = PstreamGlobals::MPICommunicators_[commi];
 
    // Output: cell -> processor addressing
    decomp.setSize(cellCentres.size());
 
    // Output: the number of edges that are cut by the partitioning
    label edgeCut = 0;
 
    // Call ParMETIS only for processors containing cells
    if (cellCentres.size())
    {
        if (method_ == "kWay")
        {
            ParMETIS_V3_PartKway
            (
                validCellOffsets.begin(),
                const_cast<label*>(xadj.begin()),
                const_cast<label*>(adjncy.begin()),
                const_cast<label*>(vwgtPtr),
                const_cast<label*>(adjwgtPtr),
                &wgtFlag,
                &numFlag,
                const_cast<label*>(&nWeights),
                &nProcessors_,
                processorWeights.begin(),
                ubvec.begin(),
                const_cast<labelList&>(options_).begin(),
                &edgeCut,
                decomp.begin(),
                &comm
            );
        }
        else if (method_ == "geomKway")
        {
            // Number of dimensions
            label nDims = 3;
 
            // Convert pointField into List<real_t>
            List<real_t> xyz(nDims*cellCentres.size());
            label i = 0;
            forAll(cellCentres, celli)
            {
                const point& cc = cellCentres[celli];
                xyz[i++] = cc.x();
                xyz[i++] = cc.y();
                xyz[i++] = cc.z();
            }
 
            ParMETIS_V3_PartGeomKway
            (
                validCellOffsets.begin(),
                const_cast<label*>(xadj.begin()),
                const_cast<label*>(adjncy.begin()),
                const_cast<label*>(vwgtPtr),
                const_cast<label*>(adjwgtPtr),
                &wgtFlag,
                &numFlag,
                &nDims,
                xyz.begin(),
                const_cast<label*>(&nWeights),
                &nProcessors_,
                processorWeights.begin(),
                ubvec.begin(),
                const_cast<labelList&>(options_).begin(),
                &edgeCut,
                decomp.begin(),
                &comm
            );
        }
        else if (method_ == "adaptiveRepart")
        {
            // Size of the vertices with respect to redistribution cost
            labelList vsize(cellCentres.size(), 1);
 
            ParMETIS_V3_AdaptiveRepart
            (
                validCellOffsets.begin(),
                const_cast<label*>(xadj.begin()),
                const_cast<label*>(adjncy.begin()),
                const_cast<label*>(vwgtPtr),
                const_cast<label*>(vsize.begin()),
                const_cast<label*>(adjwgtPtr),
                &wgtFlag,
                &numFlag,
                const_cast<label*>(&nWeights),
                &nProcessors_,
                processorWeights.begin(),
                ubvec.begin(),
                &itr_,
                const_cast<labelList&>(options_).begin(),
                &edgeCut,
                decomp.begin(),
                &comm
            );
        }
    }
 
    // Delete the sub-set communicator if created
    if (commi != UPstream::worldComm)
    {
        Pstream::freeCommunicator(commi);
    }
 
    // Sum the number of cells allocated to each processor
    labelList nProcCells(Pstream::nProcs(), 0);
 
    forAll(decomp, i)
    {
        nProcCells[decomp[i]]++;
    }
 
    reduce(nProcCells, ListOp<sumOp<label>>());
 
    // If there are no cells allocated to this processor keep the first one
    // to ensure that all processors have at least one cell
    if (nProcCells[Pstream::myProcNo()] == 0)
    {
        Pout<< "    No cells allocated to this processor"
               ", keeping first cell"
            << endl;
        decomp[0] = Pstream::myProcNo();
    }
 
    return edgeCut;
}
 
 
// * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //
 
Foam::decompositionMethods::parMetis::parMetis
(
    const dictionary& decompositionDict,
    const dictionary& methodDict
)
:
    decompositionMethod(decompositionDict),
    methodDict_(methodDict),
    method_("geomKway"),
    options_(4, label(0)),
    itr_(1000)
{
    // Check for user supplied weights and decomp options
    if (decompositionDict.found("parMetisCoeffs"))
    {
        const dictionary& parMetisCoeffs =
            decompositionDict.subDict("parMetisCoeffs");
 
        Info<< type() << ": reading coefficients:" << endl;
 
        if (parMetisCoeffs.readIfPresent("method", method_))
        {
            if
            (
                method_ != "kWay"
             && method_ != "geomKWay"
             && method_ != "adaptiveRepart"
            )
            {
                FatalIOErrorInFunction(parMetisCoeffs)
                    << "Method " << method_
                    << " in parMetisCoeffs in dictionary : "
                    << decompositionDict.name()
                    << " should be kWay, geomKWay or adaptiveRepart"
                    << exit(FatalIOError);
            }
 
            Info<< "    method: " << method_ << endl;
        }
 
        if
        (
            method_ == "adaptiveRepart"
         && parMetisCoeffs.readIfPresent("itr", itr_)
        )
        {
            Info<< "    itr: " << itr_ << endl;
        }
 
        if (parMetisCoeffs.readIfPresent("options", options_))
        {
            if (options_.size() != 4)
            {
                FatalIOErrorInFunction(parMetisCoeffs)
                    << "Number of options in parMetisCoeffs dictionary : "
                    << decompositionDict.name()
                    << " should be 4, found " << options_
                    << exit(FatalIOError);
            }
 
            Info<< "    options: " << options_ << endl;
        }
 
        parMetisCoeffs.readIfPresent("processorWeights_", processorWeights_);
 
        Info << endl;
    }
}
 
 
// * * * * * * * * * * * * * * * Member Functions  * * * * * * * * * * * * * //
 
Foam::labelList Foam::decompositionMethods::parMetis::decompose
(
    const polyMesh& mesh,
    const pointField& points,
    const scalarField& pointWeights
)
{
    if (points.size() != mesh.nCells())
    {
        FatalErrorInFunction
            << "Can use this decomposition method only for the whole mesh"
            << endl
            << "and supply one coordinate (cellCentre) for every cell." << endl
            << "The number of coordinates " << points.size() << endl
            << "The number of cells in the mesh " << mesh.nCells()
            << exit(FatalError);
    }
 
    // Make Metis CSR (Compressed Storage Format) storage
    //   adjncy      : contains neighbours (= edges in graph)
    //   xadj(celli) : start of information in adjncy for celli
    CompactListList<label> cellCells;
    calcCellCells
    (
        mesh,
        identityMap(mesh.nCells()),
        mesh.nCells(),
        true,
        cellCells
    );
 
    label nWeights = this->nWeights(points, pointWeights);
 
    const labelList intWeights(scaleWeights(pointWeights, nWeights));
 
    labelList decomp;
    decompose
    (
        cellCells.offsets(),
        cellCells.m(),
        points,
        nWeights,
        intWeights,
        labelList(),
        decomp
    );
 
    return decomp;
}
 
 
Foam::labelList Foam::decompositionMethods::parMetis::decompose
(
    const polyMesh& mesh,
    const labelList& cellToRegion,
    const pointField& regionPoints,
    const scalarField& pointWeights
)
{
    if (cellToRegion.size() != mesh.nCells())
    {
        FatalErrorInFunction
            << "Size of cell-to-coarse map " << cellToRegion.size()
            << " differs from number of cells in mesh " << mesh.nCells()
            << exit(FatalError);
    }
 
    // Make Metis CSR (Compressed Storage Format) storage
    //   adjncy      : contains neighbours (= edges in graph)
    //   xadj(celli) : start of information in adjncy for celli
    CompactListList<label> cellCells;
    calcCellCells
    (
        mesh,
        cellToRegion,
        regionPoints.size(),
        true,
        cellCells
    );
 
    label nWeights = this->nWeights(regionPoints, pointWeights);
    const labelList intWeights(scaleWeights(pointWeights, nWeights));
 
    // Decompose using weights
    labelList decomp;
    decompose
    (
        cellCells.m(),
        cellCells.offsets(),
        regionPoints,
        nWeights,
        intWeights,
        labelList(),
        decomp
    );
 
    // Rework back into decomposition for original mesh
    labelList fineDistribution(cellToRegion.size());
 
    forAll(fineDistribution, i)
    {
        fineDistribution[i] = decomp[cellToRegion[i]];
    }
 
    return fineDistribution;
}
 
 
Foam::labelList Foam::decompositionMethods::parMetis::decompose
(
    const labelListList& globalCellCells,
    const pointField& cellCentres,
    const scalarField& cellWeights
)
{
    if (cellCentres.size() != globalCellCells.size())
    {
        FatalErrorInFunction
            << "Inconsistent number of cells (" << globalCellCells.size()
            << ") and number of cell centres (" << cellCentres.size()
            << ")." << exit(FatalError);
    }
 
    // Make Metis Distributed CSR (Compressed Storage Format) storage
    //   adjncy      : contains neighbours (= edges in graph)
    //   xadj(celli) : start of information in adjncy for celli
    CompactListList<label> cellCells(globalCellCells);
 
    label nWeights = this->nWeights(cellCentres, cellWeights);
    const labelList intWeights(scaleWeights(cellWeights, nWeights));
 
    labelList decomp;
    decompose
    (
        cellCells.offsets(),
        cellCells.m(),
        cellCentres,
        nWeights,
        intWeights,
        labelList(),
        decomp
    );
 
    return decomp;
}
 
 
// ************************************************************************* //