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/*---------------------------------------------------------------------------*\
========= |
\\ / F ield | OpenFOAM: The Open Source CFD Toolbox
\\ / O peration |
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\\/ M anipulation |
-------------------------------------------------------------------------------
License
This file is part of OpenFOAM.
OpenFOAM is free software; you can redistribute it and/or modify it
under the terms of the GNU General Public License as published by the
Free Software Foundation; either version 2 of the License, or (at your
option) any later version.
OpenFOAM is distributed in the hope that it will be useful, but WITHOUT
ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License
for more details.
You should have received a copy of the GNU General Public License
along with OpenFOAM; if not, write to the Free Software Foundation,
Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
Application
redistributeMeshPar
Description
Parallel redecomposition of mesh.
\*---------------------------------------------------------------------------*/
#include "Field.H"
#include "fvMesh.H"
#include "decompositionMethod.H"
#include "PstreamReduceOps.H"
#include "fvCFD.H"
#include "fvMeshDistribute.H"
#include "mapDistributePolyMesh.H"
#include "IOobjectList.H"
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
// Tolerance (as fraction of the bounding box). Needs to be fairly lax since
// usually meshes get written with limited precision (6 digits)
static const scalar defaultMergeTol = 1E-6;
// Read mesh if available. Otherwise create empty mesh with same non-proc
// patches as proc0 mesh. Requires all processors to have all patches
// (and in same order).
autoPtr<fvMesh> createMesh
(
const Time& runTime,
const fileName& instDir,
const bool haveMesh
)
{
Pout<< "Create mesh for time = "
<< runTime.timeName() << nl << endl;
// Create dummy mesh. Only used on procs that don't have mesh.
// Note constructed on all processors since does parallel comms.
fvMesh dummyMesh
(
IOobject
(
fvMesh::defaultRegion,
instDir,
runTime,
IOobject::MUST_READ
),
xferCopy(pointField()),
xferCopy(faceList()),
xferCopy(labelList()),
xferCopy(labelList())
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);
if (!haveMesh)
{
Pout<< "Writing dummy mesh to " << runTime.path()/instDir << endl;
dummyMesh.write();
}
Pout<< "Reading mesh from " << runTime.path()/instDir << endl;
autoPtr<fvMesh> meshPtr
(
new fvMesh
(
IOobject
(
fvMesh::defaultRegion,
instDir,
runTime,
IOobject::MUST_READ
)
)
);
fvMesh& mesh = meshPtr();
// Determine patches.
if (Pstream::master())
{
// Send patches
for
(
int slave=Pstream::firstSlave();
slave<=Pstream::lastSlave();
slave++
)
{
OPstream toSlave(Pstream::blocking, slave);
toSlave << mesh.boundaryMesh();
}
}
else
{
// Receive patches
IPstream fromMaster(Pstream::blocking, Pstream::masterNo());
PtrList<entry> patchEntries(fromMaster);
if (haveMesh)
{
// Check master names against mine
const polyBoundaryMesh& patches = mesh.boundaryMesh();
forAll(patchEntries, patchI)
{
const entry& e = patchEntries[patchI];
const word type(e.dict().lookup("type"));
const word& name = e.keyword();
if (type == processorPolyPatch::typeName)
{
break;
}
if (patchI >= patches.size())
{
FatalErrorIn
(
"createMesh(const Time&, const fileName&, const bool)"
) << "Non-processor patches not synchronised."
<< endl
<< "Processor " << Pstream::myProcNo()
<< " has only " << patches.size()
<< " patches, master has "
<< patchI
<< exit(FatalError);
}
if
(
type != patches[patchI].type()
|| name != patches[patchI].name()
)
{
FatalErrorIn
(
"createMesh(const Time&, const fileName&, const bool)"
) << "Non-processor patches not synchronised."
<< endl
<< "Master patch " << patchI
<< " name:" << type
<< " type:" << type << endl
<< "Processor " << Pstream::myProcNo()
<< " patch " << patchI
<< " has name:" << patches[patchI].name()
<< " type:" << patches[patchI].type()
<< exit(FatalError);
}
}
}
else
{
// Add patch
List<polyPatch*> patches(patchEntries.size());
label nPatches = 0;
forAll(patchEntries, patchI)
{
const entry& e = patchEntries[patchI];
const word type(e.dict().lookup("type"));
const word& name = e.keyword();
if (type == processorPolyPatch::typeName)
{
break;
}
Pout<< "Adding patch:" << nPatches
<< " name:" << name
<< " type:" << type << endl;
dictionary patchDict(e.dict());
patchDict.remove("nFaces");
patchDict.add("nFaces", 0);
patchDict.remove("startFace");
patchDict.add("startFace", 0);
patches[patchI] = polyPatch::New
(
name,
patchDict,
nPatches++,
mesh.boundaryMesh()
).ptr();
}
patches.setSize(nPatches);
mesh.addFvPatches(patches, false); // no parallel comms
//// Write empty mesh now we have correct patches
//meshPtr().write();
}
}
if (!haveMesh)
{
// We created a dummy mesh file above. Delete it.
Pout<< "Removing dummy mesh in " << runTime.path()/instDir << endl;
rmDir(runTime.path()/instDir/polyMesh::meshSubDir);
}
// Force recreation of globalMeshData.
mesh.clearOut();
mesh.globalData();
return meshPtr;
}
// Get merging distance when matching face centres
scalar getMergeDistance
(
const argList& args,
const Time& runTime,
const boundBox& bb
)
{
scalar mergeTol = defaultMergeTol;
if (args.options().found("mergeTol"))
{
mergeTol = readScalar(IStringStream(args.options()["mergeTol"])());
}
Foam::pow(scalar(10.0), -scalar(IOstream::defaultPrecision()));
Info<< "Merge tolerance : " << mergeTol << nl
<< "Write tolerance : " << writeTol << endl;
if (runTime.writeFormat() == IOstream::ASCII && mergeTol < writeTol)
{
FatalErrorIn("getMergeDistance")
<< "Your current settings specify ASCII writing with "
<< IOstream::defaultPrecision() << " digits precision." << endl
<< "Your merging tolerance (" << mergeTol << ") is finer than this."
<< endl
<< "Please change your writeFormat to binary"
<< " or increase the writePrecision" << endl
<< "or adjust the merge tolerance (-mergeTol)."
<< exit(FatalError);
}
scalar mergeDist = mergeTol * bb.mag();
Info<< "Overall meshes bounding box : " << bb << nl
<< "Relative tolerance : " << mergeTol << nl
<< "Absolute matching distance : " << mergeDist << nl
<< endl;
return mergeDist;
}
void printMeshData(Ostream& os, const polyMesh& mesh)
{
os << "Number of points: " << mesh.points().size() << nl
<< " edges: " << mesh.edges().size() << nl
<< " faces: " << mesh.faces().size() << nl
<< " internal faces: " << mesh.faceNeighbour().size() << nl
<< " cells: " << mesh.cells().size() << nl
<< " boundary patches: " << mesh.boundaryMesh().size() << nl
<< " point zones: " << mesh.pointZones().size() << nl
<< " face zones: " << mesh.faceZones().size() << nl
<< " cell zones: " << mesh.cellZones().size() << nl;
}
// Debugging: write volScalarField with decomposition for post processing.
void writeDecomposition
(
const word& name,
const fvMesh& mesh,
const labelList& decomp
)
{
Info<< "Writing wanted cell distribution to volScalarField " << name
<< " for postprocessing purposes." << nl << endl;
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volScalarField procCells
(
IOobject
(
name,
mesh.time().timeName(),
mesh,
IOobject::NO_READ,
IOobject::AUTO_WRITE,
false // do not register
),
mesh,
dimensionedScalar(name, dimless, -1),
zeroGradientFvPatchScalarField::typeName
);
forAll(procCells, cI)
{
procCells[cI] = decomp[cI];
}
procCells.write();
}
// Read vol or surface fields
//template<class T, class Mesh>
template<class GeoField>
void readFields
(
const boolList& haveMesh,
const fvMesh& mesh,
const autoPtr<fvMeshSubset>& subsetterPtr,
IOobjectList& allObjects,
PtrList<GeoField>& fields
)
{
//typedef GeometricField<T, fvPatchField, Mesh> fldType;
// Get my objects of type
IOobjectList objects(allObjects.lookupClass(GeoField::typeName));
// Check that we all have all objects
wordList objectNames = objects.toc();
// Get master names
wordList masterNames(objectNames);
Pstream::scatter(masterNames);
if (haveMesh[Pstream::myProcNo()] && objectNames != masterNames)
{
FatalErrorIn("readFields()")
<< "differing fields of type " << GeoField::typeName
<< " on processors." << endl
<< "Master has:" << masterNames << endl
<< Pstream::myProcNo() << " has:" << objectNames
<< abort(FatalError);
}
fields.setSize(masterNames.size());
// Have master send all fields to processors that don't have a mesh
if (Pstream::master())
{
forAll(masterNames, i)
{
const word& name = masterNames[i];
IOobject& io = *objects[name];
io.writeOpt() = IOobject::AUTO_WRITE;
// Load field
fields.set(i, new GeoField(io, mesh));
// Create zero sized field and send
if (subsetterPtr.valid())
{
tmp<GeoField> tsubfld = subsetterPtr().interpolate(fields[i]);
// Send to all processors that don't have a mesh
for (label procI = 1; procI < Pstream::nProcs(); procI++)
{
if (!haveMesh[procI])
{
OPstream toProc(Pstream::blocking, procI);
toProc<< tsubfld();
}
}
}
}
}
else if (!haveMesh[Pstream::myProcNo()])
{
// Don't have mesh (nor fields). Receive empty field from master.
forAll(masterNames, i)
{
const word& name = masterNames[i];
// Receive field
IPstream fromMaster(Pstream::blocking, Pstream::masterNo());
fields.set
(
i,
new GeoField
(
IOobject
(
name,
mesh.time().timeName(),
mesh,
IOobject::NO_READ,
IOobject::AUTO_WRITE
),
mesh,
fromMaster
)
);
//// Write it for next time round (since mesh gets written as well)
//fields[i].write();
}
}
else
{
// Have mesh so just try to load
forAll(masterNames, i)
{
const word& name = masterNames[i];
IOobject& io = *objects[name];
io.writeOpt() = IOobject::AUTO_WRITE;
// Load field
fields.set(i, new GeoField(io, mesh));
}
}
}
// Debugging: compare two fields.
void compareFields
(
const scalar tolDim,
const volVectorField& a,
const volVectorField& b
)
{
forAll(a, cellI)
{
if (mag(b[cellI] - a[cellI]) > tolDim)
{
FatalErrorIn
(
"compareFields"
"(const scalar, const volVectorField&, const volVectorField&)"
) << "Did not map volVectorField correctly:" << nl
<< "cell:" << cellI
<< " transfer b:" << b[cellI]
<< " real cc:" << a[cellI]
<< abort(FatalError);
}
}
forAll(a.boundaryField(), patchI)
{
// We have real mesh cellcentre and
// mapped original cell centre.
const fvPatchVectorField& aBoundary =
a.boundaryField()[patchI];
const fvPatchVectorField& bBoundary =
b.boundaryField()[patchI];
if (!bBoundary.coupled())
{
forAll(aBoundary, i)
{
if (mag(aBoundary[i] - bBoundary[i]) > tolDim)
{
FatalErrorIn
(
"compareFields"
"(const scalar, const volVectorField&"
", const volVectorField&)"
) << "Did not map volVectorField correctly:"
<< endl
<< "patch:" << patchI << " patchFace:" << i
<< " cc:" << endl
<< " real :" << aBoundary[i] << endl
<< " mapped :" << bBoundary[i] << endl
<< abort(FatalError);
}
}
}
}
}
// Main program:
int main(int argc, char *argv[])
{
argList::validOptions.insert("mergeTol", "relative merge distance");
# include "setRootCase.H"
// Create processor directory if non-existing
if (!Pstream::master() && !isDir(args.path()))
{
Pout<< "Creating case directory " << args.path() << endl;
mkDir(args.path());
}
# include "createTime.H"
// Get time instance directory. Since not all processors have meshes
// just use the master one everywhere.
fileName masterInstDir;
if (Pstream::master())
{
masterInstDir = runTime.findInstance(polyMesh::meshSubDir, "points");
}
Pstream::scatter(masterInstDir);
// Check who has a mesh
const fileName meshDir = runTime.path()/masterInstDir/polyMesh::meshSubDir;
boolList haveMesh(Pstream::nProcs(), false);
haveMesh[Pstream::myProcNo()] = isDir(meshDir);
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Pstream::gatherList(haveMesh);
Pstream::scatterList(haveMesh);
Info<< "Per processor mesh availability : " << haveMesh << endl;
const bool allHaveMesh = (findIndex(haveMesh, false) == -1);
// Create mesh
autoPtr<fvMesh> meshPtr = createMesh
(
runTime,
masterInstDir,
haveMesh[Pstream::myProcNo()]
);
fvMesh& mesh = meshPtr();
Pout<< "Read mesh:" << endl;
printMeshData(Pout, mesh);
Pout<< endl;
IOdictionary decompositionDict
(
IOobject
(
"decomposeParDict",
runTime.system(),
mesh,
IOobject::MUST_READ,
IOobject::NO_WRITE
)
);
labelList finalDecomp;
// Create decompositionMethod and new decomposition
{
autoPtr<decompositionMethod> decomposer
(
decompositionMethod::New
(
decompositionDict,
mesh
)
);
if (!decomposer().parallelAware())
{
WarningIn(args.executable())
<< "You have selected decomposition method "
<< decomposer().typeName
<< " which does" << endl
<< "not synchronise the decomposition across"
<< " processor patches." << endl
<< " You might want to select a decomposition method which"
<< " is aware of this. Continuing."
<< endl;
}
finalDecomp = decomposer().decompose(mesh.cellCentres());
}
// Dump decomposition to volScalarField
writeDecomposition("decomposition", mesh, finalDecomp);
// Create 0 sized mesh to do all the generation of zero sized
// fields on processors that have zero sized meshes. Note that this is
// only nessecary on master but since polyMesh construction with
// Pstream::parRun does parallel comms we have to do it on all
// processors
autoPtr<fvMeshSubset> subsetterPtr;
if (!allHaveMesh)
{
// Find last non-processor patch.
const polyBoundaryMesh& patches = mesh.boundaryMesh();
label nonProcI = -1;
forAll(patches, patchI)
{
if (isA<processorPolyPatch>(patches[patchI]))
{
break;
}
nonProcI++;
}
if (nonProcI == -1)
{
FatalErrorIn(args.executable())
<< "Cannot find non-processor patch on processor "
<< Pstream::myProcNo() << endl
<< " Current patches:" << patches.names() << abort(FatalError);
}
// Subset 0 cells, no parallel comms. This is used to create zero-sized
// fields.
subsetterPtr.reset(new fvMeshSubset(mesh));
subsetterPtr().setLargeCellSubset(labelHashSet(0), nonProcI, false);
}
// Get original objects (before incrementing time!)
IOobjectList objects(mesh, runTime.timeName());
// We don't want to map the decomposition (mapping already tested when
// mapping the cell centre field)
IOobjectList::iterator iter = objects.find("decomposition");
if (iter != objects.end())
{
objects.erase(iter);
}
PtrList<volScalarField> volScalarFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
volScalarFields
);
PtrList<volVectorField> volVectorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
volVectorFields
);
PtrList<volSphericalTensorField> volSphereTensorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
volSphereTensorFields
);
PtrList<volSymmTensorField> volSymmTensorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
volSymmTensorFields
);
PtrList<volTensorField> volTensorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
volTensorFields
);
PtrList<surfaceScalarField> surfScalarFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
surfScalarFields
);
PtrList<surfaceVectorField> surfVectorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
surfVectorFields
);
PtrList<surfaceSphericalTensorField> surfSphereTensorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
surfSphereTensorFields
);
PtrList<surfaceSymmTensorField> surfSymmTensorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
surfSymmTensorFields
);
PtrList<surfaceTensorField> surfTensorFields;
readFields
(
haveMesh,
mesh,
subsetterPtr,
objects,
surfTensorFields
);
// Debugging: Create additional volField that will be mapped.
// Used to test correctness of mapping
volVectorField mapCc("mapCc", 1*mesh.C());
// Global matching tolerance
const scalar tolDim = getMergeDistance
(
args,
runTime,
mesh.globalData().bb()
);
// Mesh distribution engine
fvMeshDistribute distributor(mesh, tolDim);
Pout<< "Wanted distribution:"
<< distributor.countCells(finalDecomp) << nl << endl;
// Do actual sending/receiving of mesh
autoPtr<mapDistributePolyMesh> map = distributor.distribute(finalDecomp);
//// Distribute any non-registered data accordingly
//map().distributeFaceData(faceCc);
// Print a bit
Pout<< "After distribution mesh:" << endl;
printMeshData(Pout, mesh);
Pout<< endl;
runTime++;
Pout<< "Writing redistributed mesh to " << runTime.timeName() << nl << endl;
mesh.write();
// Debugging: test mapped cellcentre field.
compareFields(tolDim, mesh.C(), mapCc);
// Print nice message
// ~~~~~~~~~~~~~~~~~~
// Determine which processors remain so we can print nice final message.
labelList nFaces(Pstream::nProcs());
nFaces[Pstream::myProcNo()] = mesh.nFaces();
Pstream::gatherList(nFaces);
Pstream::scatterList(nFaces);
Info<< nl
<< "You can pick up the redecomposed mesh from the polyMesh directory"
<< " in " << runTime.timeName() << "." << nl
<< "If you redecomposed the mesh to less processors you can delete"
<< nl
<< "the processor directories with 0 sized meshes in them." << nl
<< "Below is a sample set of commands to do this."
<< " Take care when issueing these" << nl
<< "commands." << nl << endl;
forAll(nFaces, procI)
{
fileName procDir = "processor" + name(procI);
if (nFaces[procI] == 0)
{
Info<< " rm -r " << procDir.c_str() << nl;
}
else
{
fileName timeDir = procDir/runTime.timeName()/polyMesh::meshSubDir;
fileName constDir = procDir/runTime.constant()/polyMesh::meshSubDir;
Info<< " rm -r " << constDir.c_str() << nl
<< " mv " << timeDir.c_str()
<< ' ' << constDir.c_str() << nl;
}
}
Info<< endl;
Pout<< "End\n" << endl;
return 0;
}
// ************************************************************************* //