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Commit 2d5c10bf authored by Thomas Witkowski's avatar Thomas Witkowski
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Starting point to make FETI-DP work with mixed finite elements.

parent 988aefe0
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Showing with 443 additions and 260 deletions
AMDiS/src/parallel/FeSpaceMapping.h 0 → 100644
View file @ 2d5c10bf
// ============================================================================
// == ==
// == AMDiS - Adaptive multidimensional simulations ==
// == ==
// == http://www.amdis-fem.org ==
// == ==
// ============================================================================
//
// Software License for AMDiS
//
// Copyright (c) 2010 Dresden University of Technology
// All rights reserved.
// Authors: Simon Vey, Thomas Witkowski et al.
//
// This file is part of AMDiS
//
// See also license.opensource.txt in the distribution.
/** \file FeSpaceMapping.h */
#include <map>
#include "parallel/MpiHelper.h"
#include "parallel/ParallelTypes.h"
#ifndef AMDIS_FE_SPACE_MAPPING_H
#define AMDIS_FE_SPACE_MAPPING_H
namespace AMDiS {
using namespace std;
class GlobalDofMap
{
public:
GlobalDofMap(MPI::Intracomm* m)
: mpiComm(m),
nRankDofs(0),
nOverallDofs(0),
rStartDofs(0)
{}
void clear()
{
dofMap.clear();
nRankDofs = 0;
nOverallDofs = 0;
rStartDofs = 0;
}
DegreeOfFreedom operator[](DegreeOfFreedom d)
{
TEST_EXIT_DBG(dofMap.count(d))("Should not happen!\n");
return dofMap[d];
}
void insertRankDof(DegreeOfFreedom dof0, DegreeOfFreedom dof1 = -1)
{
FUNCNAME("GlobalDofMap::insertRankDof()");
TEST_EXIT_DBG(dofMap.count(dof0) == 0)("Should not happen!\n");
dofMap[dof0] = (dof1 >= 0 ? dof1 : nRankDofs);
nRankDofs++;
}
void insert(DegreeOfFreedom dof0, DegreeOfFreedom dof1)
{
FUNCNAME("GlobalDofMap::insert()");
TEST_EXIT_DBG(dofMap.count(dof0) == 0)("Should not happen!\n");
dofMap[dof0] = dof1;
}
bool isSet(DegreeOfFreedom dof)
{
return static_cast<bool>(dofMap.count(dof));
}
unsigned int size()
{
return dofMap.size();
}
DofMapping& getMap()
{
return dofMap;
}
void update(bool add = true)
{
nOverallDofs = 0;
rStartDofs = 0;
mpi::getDofNumbering(*mpiComm, nRankDofs, rStartDofs, nOverallDofs);
if (add)
addOffset(rStartDofs);
}
void addOffset(int offset)
{
for (DofMapping::iterator it = dofMap.begin(); it != dofMap.end(); ++it)
it->second += offset;
}
private:
MPI::Intracomm* mpiComm;
///
DofMapping dofMap;
public:
///
int nRankDofs, nOverallDofs, rStartDofs;
};
template<typename T>
class FeSpaceData
{
public:
FeSpaceData() {}
void setMpiComm(MPI::Intracomm *m)
{
mpiComm = m;
}
T& operator[](const FiniteElemSpace* feSpace)
{
FUNCNAME("FeSpaceData::operator[]()");
TEST_EXIT_DBG(data.count(feSpace))("Should not happen!\n");
return data.find(feSpace)->second;
}
void addFeSpace(const FiniteElemSpace* feSpace)
{
FUNCNAME("FeSpaceData::addFeSpace()");
if (data.count(feSpace))
data.find(feSpace)->second.clear();
else
data.insert(make_pair(feSpace, T(mpiComm)));
}
private:
MPI::Intracomm* mpiComm;
map<const FiniteElemSpace*, T> data;
};
}
#endif
AMDiS/src/parallel/PetscSolver.h
View file @ 2d5c10bf
......@@ -57,6 +57,7 @@ namespace AMDiS {
{
meshDistributor = m;
mpiRank = meshDistributor->getMpiRank();
mpiComm = &(meshDistributor->getMpiComm());
}
/** \brief
......@@ -85,9 +86,15 @@ namespace AMDiS {
return 0;
}
KSP getSolver() { return solver; }
KSP getSolver()
{
return solver;
}
PC getPc() { return pc; }
PC getPc()
{
return pc;
}
protected:
void printSolutionInfo(AdaptInfo* adaptInfo,
......@@ -123,6 +130,8 @@ namespace AMDiS {
int mpiRank;
MPI::Intracomm* mpiComm;
/// Petsc's matrix structure.
Mat petscMatrix;
......
AMDiS/src/parallel/PetscSolverFeti.cc
View file @ 2d5c10bf
......@@ -11,6 +11,7 @@
#include "parallel/PetscSolverFeti.h"
#include "parallel/PetscSolverFetiStructs.h"
#include "parallel/StdMpi.h"
#include "parallel/MpiHelper.h"
#include "io/VtkWriter.h"
......@@ -248,32 +249,16 @@ namespace AMDiS {
// === Calculate the number of primals that are owned by the rank and ===
// === create local indices of the primals starting at zero. ===
globalPrimalIndex.clear();
nRankPrimals = 0;
primalDofMap.addFeSpace(feSpace);
for (DofIndexSet::iterator it = primals.begin(); it != primals.end(); ++it)
if (meshDistributor->getIsRankDof(feSpace, *it)) {
globalPrimalIndex[*it] = nRankPrimals;
nRankPrimals++;
}
// === Get overall number of primals and rank's displacement in the ===
// === numbering of the primals. ===
nOverallPrimals = 0;
rStartPrimals = 0;
mpi::getDofNumbering(meshDistributor->getMpiComm(),
nRankPrimals, rStartPrimals, nOverallPrimals);
// === Create global primal index for all primals. ===
if (meshDistributor->getIsRankDof(feSpace, *it))
primalDofMap[feSpace].insertRankDof(*it);
for (DofMapping::iterator it = globalPrimalIndex.begin();
it != globalPrimalIndex.end(); ++it)
it->second += rStartPrimals;
primalDofMap[feSpace].update();
MSG("nRankPrimals = %d nOverallPrimals = %d\n",
nRankPrimals, nOverallPrimals);
primalDofMap[feSpace].nRankDofs,
primalDofMap[feSpace].nOverallDofs);
// === Communicate primal's global index from ranks that own the ===
......@@ -286,8 +271,10 @@ namespace AMDiS {
for (DofComm::Iterator it(meshDistributor->getSendDofs(), feSpace);
!it.end(); it.nextRank())
for (; !it.endDofIter(); it.nextDof())
if (globalPrimalIndex.count(it.getDofIndex()))
stdMpi.getSendData(it.getRank()).push_back(globalPrimalIndex[it.getDofIndex()]);
if (primalDofMap[feSpace].isSet(it.getDofIndex())) {
DegreeOfFreedom d = primalDofMap[feSpace][it.getDofIndex()];
stdMpi.getSendData(it.getRank()).push_back(d);
}
stdMpi.updateSendDataSize();
......@@ -313,15 +300,16 @@ namespace AMDiS {
int i = 0;
for (; !it.endDofIter(); it.nextDof()) {
if (primals.count(it.getDofIndex()) &&
meshDistributor->getIsRankDof(feSpace, it.getDofIndex()) == false)
globalPrimalIndex[it.getDofIndex()] =
stdMpi.getRecvData(it.getRank())[i++];
meshDistributor->getIsRankDof(feSpace, it.getDofIndex()) == false) {
DegreeOfFreedom d = stdMpi.getRecvData(it.getRank())[i++];
primalDofMap[feSpace].insert(it.getDofIndex(), d);
}
}
}
TEST_EXIT_DBG(primals.size() == globalPrimalIndex.size())
TEST_EXIT_DBG(primals.size() == primalDofMap[feSpace].size())
("Number of primals %d, but number of global primals on this rank is %d!\n",
primals.size(), globalPrimalIndex.size());
primals.size(), primalDofMap[feSpace].size());
}
......@@ -340,7 +328,7 @@ namespace AMDiS {
!it.end(); it.nextRank())
for (; !it.endDofIter(); it.nextDof()) {
// If DOF is not primal, i.e., its a dual node
if (globalPrimalIndex.count(it.getDofIndex()) == 0) {
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false) {
boundaryDofRanks[it.getDofIndex()].insert(mpiRank);
boundaryDofRanks[it.getDofIndex()].insert(it.getRank());
}
......@@ -355,7 +343,7 @@ namespace AMDiS {
for (DofComm::Iterator it(meshDistributor->getSendDofs(), feSpace);
!it.end(); it.nextRank())
for (; !it.endDofIter(); it.nextDof())
if (globalPrimalIndex.count(it.getDofIndex()) == 0)
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false)
stdMpi.getSendData(it.getRank()).push_back(boundaryDofRanks[it.getDofIndex()]);
stdMpi.updateSendDataSize();
......@@ -364,7 +352,7 @@ namespace AMDiS {
!it.end(); it.nextRank()) {
bool recvFromRank = false;
for (; !it.endDofIter(); it.nextDof()) {
if (globalPrimalIndex.count(it.getDofIndex()) == 0) {
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false) {
recvFromRank = true;
break;
}
......@@ -380,18 +368,17 @@ namespace AMDiS {
!it.end(); it.nextRank()) {
int i = 0;
for (; !it.endDofIter(); it.nextDof())
if (globalPrimalIndex.count(it.getDofIndex()) == 0)
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false)
boundaryDofRanks[it.getDofIndex()] =
stdMpi.getRecvData(it.getRank())[i++];
}
// === Create global index of the dual nodes on each rank. ===
duals.clear();
globalDualIndex.clear();
dualDofMap.addFeSpace(feSpace);
int nRankAllDofs = feSpace->getAdmin()->getUsedDofs();
nRankB = nRankAllDofs - globalPrimalIndex.size();
nRankB = nRankAllDofs - primalDofMap[feSpace].size();
nOverallB = 0;
rStartB = 0;
mpi::getDofNumbering(meshDistributor->getMpiComm(),
......@@ -400,21 +387,17 @@ namespace AMDiS {
meshDistributor->getAllBoundaryDofs(feSpace, allBoundaryDofs);
int nRankInteriorDofs = nRankAllDofs - allBoundaryDofs.size();
int nRankDuals = 0;
for (DofContainer::iterator it = allBoundaryDofs.begin();
it != allBoundaryDofs.end(); ++it) {
if (globalPrimalIndex.count(**it) == 0) {
duals.insert(**it);
globalDualIndex[**it] = rStartB + nRankInteriorDofs + nRankDuals;
nRankDuals++;
}
}
it != allBoundaryDofs.end(); ++it)
if (primalDofMap[feSpace].isSet(**it) == false)
dualDofMap[feSpace].insertRankDof(**it);
int nOverallDuals = nRankDuals;
mpi::globalAdd(nOverallDuals);
dualDofMap[feSpace].update(false);
dualDofMap[feSpace].addOffset(rStartB + nRankInteriorDofs);
MSG("nRankDuals = %d nOverallDuals = %d\n",
nRankDuals, nOverallDuals);
dualDofMap[feSpace].nRankDofs,
dualDofMap[feSpace].nOverallDofs);
}
......@@ -422,36 +405,27 @@ namespace AMDiS {
{
FUNCNAME("PetscSolverFeti::createLagrange()");
const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
// === Reserve for each dual node, on the rank that owns this node, the ===
// === appropriate number of Lagrange constraints. ===
nRankLagrange = 0;
for (DofIndexSet::iterator it = duals.begin(); it != duals.end(); ++it) {
if (meshDistributor->getIsRankDof(feSpace, *it)) {
dofFirstLagrange[*it] = nRankLagrange;
int degree = boundaryDofRanks[*it].size();
const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
dofFirstLagrange.addFeSpace(feSpace);
int nRankLagrange = 0;
DofMapping& dualMap = dualDofMap[feSpace].getMap();
for (DofMapping::iterator it = dualMap.begin(); it != dualMap.end(); ++it) {
if (meshDistributor->getIsRankDof(feSpace, it->first)) {
dofFirstLagrange[feSpace].insert(it->first, nRankLagrange);
int degree = boundaryDofRanks[it->first].size();
nRankLagrange += (degree * (degree - 1)) / 2;
}
}
// === Get the overall number of Lagrange constraints and create the ===
// === mapping dofFirstLagrange, that defines for each dual boundary ===
// === node the first Lagrange constraint global index. ===
nOverallLagrange = 0;
rStartLagrange = 0;
mpi::getDofNumbering(meshDistributor->getMpiComm(),
nRankLagrange, rStartLagrange, nOverallLagrange);
for (DofIndexSet::iterator it = duals.begin(); it != duals.end(); ++it)
if (meshDistributor->getIsRankDof(feSpace, *it))
dofFirstLagrange[*it] += rStartLagrange;
dofFirstLagrange[feSpace].nRankDofs = nRankLagrange;
dofFirstLagrange[feSpace].update();
MSG("nRankLagrange = %d nOverallLagrange = %d\n",
nRankLagrange, nOverallLagrange);
dofFirstLagrange[feSpace].nRankDofs,
dofFirstLagrange[feSpace].nOverallDofs);
// === Communicate dofFirstLagrange to all other ranks. ===
......@@ -461,10 +435,11 @@ namespace AMDiS {
for (DofComm::Iterator it(meshDistributor->getSendDofs(), feSpace);
!it.end(); it.nextRank()) {
for (; !it.endDofIter(); it.nextDof())
if (globalPrimalIndex.count(it.getDofIndex()) == 0) {
TEST_EXIT_DBG(dofFirstLagrange.count(it.getDofIndex()))
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false) {
TEST_EXIT_DBG(dofFirstLagrange[feSpace].isSet(it.getDofIndex()))
("Should not happen!\n");
stdMpi.getSendData(it.getRank()).push_back(dofFirstLagrange[it.getDofIndex()]);
DegreeOfFreedom d = dofFirstLagrange[feSpace][it.getDofIndex()];
stdMpi.getSendData(it.getRank()).push_back(d);
}
}
......@@ -474,7 +449,7 @@ namespace AMDiS {
!it.end(); it.nextRank()) {
bool recvData = false;
for (; !it.endDofIter(); it.nextDof())
if (globalPrimalIndex.count(it.getDofIndex()) == 0) {
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false) {
recvData = true;
break;
}
......@@ -488,10 +463,12 @@ namespace AMDiS {
for (DofComm::Iterator it(meshDistributor->getRecvDofs(), feSpace);
!it.end(); it.nextRank()) {
int counter = 0;
for (; !it.endDofIter(); it.nextDof())
if (globalPrimalIndex.count(it.getDofIndex()) == 0)
dofFirstLagrange[it.getDofIndex()] =
stdMpi.getRecvData(it.getRank())[counter++];
for (; !it.endDofIter(); it.nextDof()) {
if (primalDofMap[feSpace].isSet(it.getDofIndex()) == false) {
DegreeOfFreedom d = stdMpi.getRecvData(it.getRank())[counter++];
dofFirstLagrange[feSpace].insert(it.getDofIndex(), d);
}
}
}
}
......@@ -509,9 +486,10 @@ namespace AMDiS {
// === without defining a correct index. ===
for (int i = 0; i < admin->getUsedSize(); i++)
if (admin->isDofFree(i) == false && globalPrimalIndex.count(i) == 0)
if (duals.count(i) == 0 && globalPrimalIndex.count(i) == 0)
localIndexB[i] = -1;
if (admin->isDofFree(i) == false &&
primalDofMap[feSpace].isSet(i) == false &&
dualDofMap[feSpace].isSet(i) == false)
localIndexB[i] = -1;
// === Get correct index for all interior nodes. ===
......@@ -522,18 +500,20 @@ namespace AMDiS {
it->second = nLocalInterior;
nLocalInterior++;
}
nLocalDuals = duals.size();
nLocalDuals = dualDofMap[feSpace].size();
TEST_EXIT_DBG(nLocalInterior + globalPrimalIndex.size() + duals.size() ==
TEST_EXIT_DBG(nLocalInterior +
primalDofMap[feSpace].size() +
dualDofMap[feSpace].size() ==
static_cast<unsigned int>(admin->getUsedDofs()))
("Should not happen!\n");
// === And finally, add the global indicies of all dual nodes. ===
for (DofIndexSet::iterator it = duals.begin();
it != duals.end(); ++it)
localIndexB[*it] = globalDualIndex[*it] - rStartB;
for (DofMapping::iterator it = dualDofMap[feSpace].getMap().begin();
it != dualDofMap[feSpace].getMap().end(); ++it)
localIndexB[it->first] = it->second - rStartB;
}
......@@ -541,12 +521,14 @@ namespace AMDiS {
{
FUNCNAME("PetscSolverFeti::createMatLagrange()");
const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
// === Create distributed matrix for Lagrange constraints. ===
MatCreateMPIAIJ(PETSC_COMM_WORLD,
nRankLagrange * nComponents,
dofFirstLagrange[feSpace].nRankDofs * nComponents,
nRankB * nComponents,
nOverallLagrange * nComponents,
dofFirstLagrange[feSpace].nOverallDofs * nComponents,
nOverallB * nComponents,
2, PETSC_NULL, 2, PETSC_NULL,
&mat_lagrange);
......@@ -558,27 +540,28 @@ namespace AMDiS {
// === m == r, than the rank sets -1.0 for the corresponding ===
// === constraint. ===
for (DofIndexSet::iterator it = duals.begin(); it != duals.end(); ++it) {
TEST_EXIT_DBG(dofFirstLagrange.count(*it))("Should not happen!\n");
TEST_EXIT_DBG(boundaryDofRanks.count(*it))("Should not happen!\n");
DofMapping &dualMap = dualDofMap[feSpace].getMap();
for (DofMapping::iterator it = dualMap.begin(); it != dualMap.end(); ++it) {
TEST_EXIT_DBG(dofFirstLagrange[feSpace].isSet(it->first))
("Should not happen!\n");
TEST_EXIT_DBG(boundaryDofRanks.count(it->first))
("Should not happen!\n");
// Global index of the first Lagrange constriant for this node.
int index = dofFirstLagrange[*it];
int index = dofFirstLagrange[feSpace][it->first];
// Copy set of all ranks that contain this dual node.
vector<int> W(boundaryDofRanks[*it].begin(), boundaryDofRanks[*it].end());
vector<int> W(boundaryDofRanks[it->first].begin(),
boundaryDofRanks[it->first].end());
// Number of ranks that contain this dual node.
int degree = W.size();
TEST_EXIT_DBG(globalDualIndex.count(*it))("Should not happen!\n");
int dualCol = globalDualIndex[*it];
for (int i = 0; i < degree; i++) {
for (int j = i + 1; j < degree; j++) {
if (W[i] == mpiRank || W[j] == mpiRank) {
// Set the constraint for all components of the system.
for (int k = 0; k < nComponents; k++) {
int rowIndex = index * nComponents + k;
int colIndex = dualCol * nComponents + k;
int colIndex = it->second * nComponents + k;
double value = (W[i] == mpiRank ? 1.0 : -1.0);
MatSetValue(mat_lagrange, rowIndex, colIndex, value,
INSERT_VALUES);
......@@ -599,6 +582,8 @@ namespace AMDiS {
{
FUNCNAME("PetscSolverFeti::createSchurPrimal()");
const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
if (schurPrimalSolver == 0) {
MSG("Create iterative schur primal solver!\n");
......@@ -611,12 +596,12 @@ namespace AMDiS {
nRankB * nComponents, nOverallB * nComponents,
&(schurPrimalData.tmp_vec_b));
VecCreateMPI(PETSC_COMM_WORLD,
nRankPrimals * nComponents, nOverallPrimals * nComponents,
primalDofMap[feSpace].nRankDofs * nComponents, primalDofMap[feSpace].nOverallDofs * nComponents,
&(schurPrimalData.tmp_vec_primal));
MatCreateShell(PETSC_COMM_WORLD,
nRankPrimals * nComponents, nRankPrimals * nComponents,
nOverallPrimals * nComponents, nOverallPrimals * nComponents,
primalDofMap[feSpace].nRankDofs * nComponents, primalDofMap[feSpace].nRankDofs * nComponents,
primalDofMap[feSpace].nOverallDofs * nComponents, primalDofMap[feSpace].nOverallDofs * nComponents,
&schurPrimalData,
&mat_schur_primal);
MatShellSetOperation(mat_schur_primal, MATOP_MULT,
......@@ -633,8 +618,8 @@ namespace AMDiS {
double wtime = MPI::Wtime();
int nRowsRankPrimal = nRankPrimals * nComponents;
int nRowsOverallPrimal = nOverallPrimals * nComponents;
int nRowsRankPrimal = primalDofMap[feSpace].nRankDofs * nComponents;
int nRowsOverallPrimal = primalDofMap[feSpace].nOverallDofs * nComponents;
int nRowsRankB = nRankB * nComponents;
int nRowsOverallB = nOverallB * nComponents;
......@@ -649,7 +634,6 @@ namespace AMDiS {
const PetscInt *cols;
const PetscScalar *values;
int nLocalPrimals = globalPrimalIndex.size() * nComponents;
map<int, vector<pair<int, double> > > mat_b_primal_cols;
for (int i = 0; i < nRankB * nComponents; i++) {
......@@ -667,7 +651,7 @@ namespace AMDiS {
mpi::globalMax(maxLocalPrimal);
TEST_EXIT(mat_b_primal_cols.size() ==
globalPrimalIndex.size() * nComponents)("Should not happen!\n");
primalDofMap[feSpace].size() * nComponents)("Should not happen!\n");
for (map<int, vector<pair<int, double> > >::iterator it = mat_b_primal_cols.begin();
it != mat_b_primal_cols.end(); ++it) {
Vec tmpVec;
......@@ -744,6 +728,8 @@ namespace AMDiS {
{
FUNCNAME("PetscSolverFeti::createFetiKsp()");
const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
// === Create FETI-DP solver object. ===
fetiData.mat_primal_b = &mat_primal_b;
......@@ -756,15 +742,18 @@ namespace AMDiS {
nRankB * nComponents, nOverallB * nComponents,
&(fetiData.tmp_vec_b));
VecCreateMPI(PETSC_COMM_WORLD,
nRankLagrange * nComponents, nOverallLagrange * nComponents,
dofFirstLagrange[feSpace].nRankDofs * nComponents,
dofFirstLagrange[feSpace].nOverallDofs * nComponents,
&(fetiData.tmp_vec_lagrange));
VecCreateMPI(PETSC_COMM_WORLD,
nRankPrimals * nComponents, nOverallPrimals * nComponents,
primalDofMap[feSpace].nRankDofs * nComponents, primalDofMap[feSpace].nOverallDofs * nComponents,
&(fetiData.tmp_vec_primal));