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ENH: multiLevel decomposition method.

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This commit is contained in:
mattijs
2010-06-04 15:31:19 +01:00
parent c9f9d384e5
commit dafbfb5c20
30 changed files with 1140 additions and 828 deletions
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130
src/parallel/decompose/metisDecomp/metisDecomp.C
View File

@ -41,12 +41,7 @@ namespace Foam
{
defineTypeNameAndDebug(metisDecomp, 0);
addToRunTimeSelectionTable
(
decompositionMethod,
metisDecomp,
dictionaryMesh
);
addToRunTimeSelectionTable(decompositionMethod, metisDecomp, dictionary);
}
@ -170,31 +165,31 @@ Foam::label Foam::metisDecomp::decompose
}
}
if (metisCoeffs.readIfPresent("cellWeightsFile", weightsFile))
{
Info<< "metisDecomp : Using cell-based weights." << endl;
IOList<int> cellIOWeights
(
IOobject
(
weightsFile,
mesh_.time().timeName(),
mesh_,
IOobject::MUST_READ,
IOobject::AUTO_WRITE
)
);
cellWeights.transfer(cellIOWeights);
if (cellWeights.size() != xadj.size()-1)
{
FatalErrorIn("metisDecomp::decompose(const pointField&)")
<< "Number of cell weights " << cellWeights.size()
<< " does not equal number of cells " << xadj.size()-1
<< exit(FatalError);
}
}
//if (metisCoeffs.readIfPresent("cellWeightsFile", weightsFile))
//{
// Info<< "metisDecomp : Using cell-based weights." << endl;
//
// IOList<int> cellIOWeights
// (
// IOobject
// (
// weightsFile,
// mesh_.time().timeName(),
// mesh_,
// IOobject::MUST_READ,
// IOobject::AUTO_WRITE
// )
// );
// cellWeights.transfer(cellIOWeights);
//
// if (cellWeights.size() != xadj.size()-1)
// {
// FatalErrorIn("metisDecomp::decompose(const pointField&)")
// << "Number of cell weights " << cellWeights.size()
// << " does not equal number of cells " << xadj.size()-1
// << exit(FatalError);
// }
//}
}
int nProcs = nProcessors_;
@ -304,14 +299,9 @@ Foam::label Foam::metisDecomp::decompose
// * * * * * * * * * * * * * * * * Constructors * * * * * * * * * * * * * * //
Foam::metisDecomp::metisDecomp
(
const dictionary& decompositionDict,
const polyMesh& mesh
)
Foam::metisDecomp::metisDecomp(const dictionary& decompositionDict)
:
decompositionMethod(decompositionDict),
mesh_(mesh)
decompositionMethod(decompositionDict)
{}
@ -319,11 +309,12 @@ Foam::metisDecomp::metisDecomp
Foam::labelList Foam::metisDecomp::decompose
(
const polyMesh& mesh,
const pointField& points,
const scalarField& pointWeights
)
{
if (points.size() != mesh_.nCells())
if (points.size() != mesh.nCells())
{
FatalErrorIn
(
@ -332,71 +323,53 @@ Foam::labelList Foam::metisDecomp::decompose
<< 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()
<< "The number of cells in the mesh " << mesh.nCells()
<< exit(FatalError);
}
List<int> adjncy;
List<int> xadj;
calcCSR(mesh_, adjncy, xadj);
CompactListList<label> cellCells;
calcCellCells(mesh, identity(mesh.nCells()), mesh.nCells(), cellCells);
// Decompose using default weights
List<int> finalDecomp;
decompose(adjncy, xadj, pointWeights, finalDecomp);
labelList decomp;
decompose(cellCells.m(), cellCells.offsets(), pointWeights, decomp);
// Copy back to labelList
labelList decomp(finalDecomp.size());
forAll(decomp, i)
{
decomp[i] = finalDecomp[i];
}
return decomp;
}
Foam::labelList Foam::metisDecomp::decompose
(
const polyMesh& mesh,
const labelList& agglom,
const pointField& agglomPoints,
const scalarField& agglomWeights
)
{
if (agglom.size() != mesh_.nCells())
if (agglom.size() != mesh.nCells())
{
FatalErrorIn
(
"metisDecomp::decompose"
"(const labelList&, const pointField&, const scalarField&)"
) << "Size of cell-to-coarse map " << agglom.size()
<< " differs from number of cells in mesh " << mesh_.nCells()
<< " 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
List<int> adjncy;
List<int> xadj;
{
// Get cellCells on coarse mesh.
labelListList cellCells;
calcCellCells
(
mesh_,
agglom,
agglomPoints.size(),
cellCells
);
calcCSR(cellCells, adjncy, xadj);
}
CompactListList<label> cellCells;
calcCellCells(mesh, agglom, agglomPoints.size(), cellCells);
// Decompose using default weights
List<int> finalDecomp;
decompose(adjncy, xadj, agglomWeights, finalDecomp);
labelList finalDecomp;
decompose(cellCells.m(), cellCells.offsets(), agglomWeights, finalDecomp);
// Rework back into decomposition for original mesh_
// Rework back into decomposition for original mesh
labelList fineDistribution(agglom.size());
forAll(fineDistribution, i)
@ -404,7 +377,7 @@ Foam::labelList Foam::metisDecomp::decompose
fineDistribution[i] = finalDecomp[agglom[i]];
}
return fineDistribution;
return finalDecomp;
}
@ -431,21 +404,12 @@ Foam::labelList Foam::metisDecomp::decompose
// adjncy : contains neighbours (= edges in graph)
// xadj(celli) : start of information in adjncy for celli
List<int> adjncy;
List<int> xadj;
calcCSR(globalCellCells, adjncy, xadj);
CompactListList<label> cellCells(globalCellCells);
// Decompose using default weights
List<int> finalDecomp;
decompose(adjncy, xadj, cellWeights, finalDecomp);
labelList decomp;
decompose(cellCells.m(), cellCells.offsets(), cellWeights, decomp);
// Copy back to labelList
labelList decomp(finalDecomp.size());
forAll(decomp, i)
{
decomp[i] = finalDecomp[i];
}
return decomp;
}

14
src/parallel/decompose/metisDecomp/metisDecomp.H
View File

@ -48,10 +48,6 @@ class metisDecomp
:
public decompositionMethod
{
// Private data
const polyMesh& mesh_;
// Private Member Functions
@ -76,12 +72,8 @@ public:
// Constructors
//- Construct given the decomposition dictionary and mesh
metisDecomp
(
const dictionary& decompositionDict,
const polyMesh& mesh
);
//- Construct given the decomposition dictionary
metisDecomp(const dictionary&);
//- Destructor
@ -104,6 +96,7 @@ public:
// value. The overall sum of weights might otherwise overflow.
virtual labelList decompose
(
const polyMesh& mesh,
const pointField& points,
const scalarField& pointWeights
);
@ -115,6 +108,7 @@ public:
// See note on weights above.
virtual labelList decompose
(
const polyMesh& mesh,
const labelList& agglom,
const pointField& regionPoints,
const scalarField& regionWeights