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Commit 334a275f authored by Thomas Witkowski's avatar Thomas Witkowski
Browse files

Moved all general debug functions to Debug.h and Debug.cc

parent 73afa800
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Showing with 360 additions and 280 deletions
AMDiS/bin/Makefile.am
View file @ 334a275f
......@@ -216,6 +216,7 @@ $(SOURCE_DIR)/SubElInfo.h $(SOURCE_DIR)/SubElInfo.cc \
$(SOURCE_DIR)/SolutionDataStorage.h $(SOURCE_DIR)/SolutionDataStorage.hh \
$(SOURCE_DIR)/InteriorBoundary.h $(SOURCE_DIR)/InteriorBoundary.cc \
$(SOURCE_DIR)/ElementDofIteartor.h $(SOURCE_DIR)/ElementDofIterator.cc \
$(SOURCE_DIR)/Debug.h $(SOURCE_DIR)/Debug.cc \
$(SOURCE_DIR)/parareal/ProblemBase.h \
$(SOURCE_DIR)/parareal/AdaptParaReal.h $(SOURCE_DIR)/parareal/AdaptParaReal.cc
......
AMDiS/bin/Makefile.in
View file @ 334a275f
......@@ -225,8 +225,8 @@ am__libamdis_la_SOURCES_DIST = $(PARALLEL_DIR)/ParallelDomainBase.h \
$(SOURCE_DIR)/InteriorBoundary.h \
$(SOURCE_DIR)/InteriorBoundary.cc \
$(SOURCE_DIR)/ElementDofIteartor.h \
$(SOURCE_DIR)/ElementDofIterator.cc \
$(SOURCE_DIR)/parareal/ProblemBase.h \
$(SOURCE_DIR)/ElementDofIterator.cc $(SOURCE_DIR)/Debug.h \
$(SOURCE_DIR)/Debug.cc $(SOURCE_DIR)/parareal/ProblemBase.h \
$(SOURCE_DIR)/parareal/AdaptParaReal.h \
$(SOURCE_DIR)/parareal/AdaptParaReal.cc
@USE_PARALLEL_DOMAIN_AMDIS_TRUE@am__objects_1 = libamdis_la-ParallelDomainBase.lo \
......@@ -290,7 +290,8 @@ am_libamdis_la_OBJECTS = $(am__objects_2) libamdis_la-DOFIndexed.lo \
libamdis_la-PngWriter.lo libamdis_la-PovrayWriter.lo \
libamdis_la-DataCollector.lo libamdis_la-ScalableQuadrature.lo \
libamdis_la-SubElInfo.lo libamdis_la-InteriorBoundary.lo \
libamdis_la-ElementDofIterator.lo libamdis_la-AdaptParaReal.lo
libamdis_la-ElementDofIterator.lo libamdis_la-Debug.lo \
libamdis_la-AdaptParaReal.lo
libamdis_la_OBJECTS = $(am_libamdis_la_OBJECTS)
libcompositeFEM_la_LIBADD =
am_libcompositeFEM_la_OBJECTS = libcompositeFEM_la-CFE_Integration.lo \
......@@ -629,6 +630,7 @@ $(SOURCE_DIR)/SubElInfo.h $(SOURCE_DIR)/SubElInfo.cc \
$(SOURCE_DIR)/SolutionDataStorage.h $(SOURCE_DIR)/SolutionDataStorage.hh \
$(SOURCE_DIR)/InteriorBoundary.h $(SOURCE_DIR)/InteriorBoundary.cc \
$(SOURCE_DIR)/ElementDofIteartor.h $(SOURCE_DIR)/ElementDofIterator.cc \
$(SOURCE_DIR)/Debug.h $(SOURCE_DIR)/Debug.cc \
$(SOURCE_DIR)/parareal/ProblemBase.h \
$(SOURCE_DIR)/parareal/AdaptParaReal.h $(SOURCE_DIR)/parareal/AdaptParaReal.cc
......@@ -747,6 +749,7 @@ distclean-compile:
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-DOFMatrix.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-DOFVector.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-DataCollector.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-Debug.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-DirichletBC.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-DualTraverse.Plo@am__quote@
@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/libamdis_la-ElInfo.Plo@am__quote@
......@@ -1532,6 +1535,13 @@ libamdis_la-ElementDofIterator.lo: $(SOURCE_DIR)/ElementDofIterator.cc
@AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
@am__fastdepCXX_FALSE@ $(LIBTOOL) --tag=CXX --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(libamdis_la_CXXFLAGS) $(CXXFLAGS) -c -o libamdis_la-ElementDofIterator.lo `test -f '$(SOURCE_DIR)/ElementDofIterator.cc' || echo '$(srcdir)/'`$(SOURCE_DIR)/ElementDofIterator.cc
libamdis_la-Debug.lo: $(SOURCE_DIR)/Debug.cc
@am__fastdepCXX_TRUE@ if $(LIBTOOL) --tag=CXX --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(libamdis_la_CXXFLAGS) $(CXXFLAGS) -MT libamdis_la-Debug.lo -MD -MP -MF "$(DEPDIR)/libamdis_la-Debug.Tpo" -c -o libamdis_la-Debug.lo `test -f '$(SOURCE_DIR)/Debug.cc' || echo '$(srcdir)/'`$(SOURCE_DIR)/Debug.cc; \
@am__fastdepCXX_TRUE@ then mv -f "$(DEPDIR)/libamdis_la-Debug.Tpo" "$(DEPDIR)/libamdis_la-Debug.Plo"; else rm -f "$(DEPDIR)/libamdis_la-Debug.Tpo"; exit 1; fi
@AMDEP_TRUE@@am__fastdepCXX_FALSE@ source='$(SOURCE_DIR)/Debug.cc' object='libamdis_la-Debug.lo' libtool=yes @AMDEPBACKSLASH@
@AMDEP_TRUE@@am__fastdepCXX_FALSE@ DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
@am__fastdepCXX_FALSE@ $(LIBTOOL) --tag=CXX --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(libamdis_la_CXXFLAGS) $(CXXFLAGS) -c -o libamdis_la-Debug.lo `test -f '$(SOURCE_DIR)/Debug.cc' || echo '$(srcdir)/'`$(SOURCE_DIR)/Debug.cc
libamdis_la-AdaptParaReal.lo: $(SOURCE_DIR)/parareal/AdaptParaReal.cc
@am__fastdepCXX_TRUE@ if $(LIBTOOL) --tag=CXX --mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(libamdis_la_CXXFLAGS) $(CXXFLAGS) -MT libamdis_la-AdaptParaReal.lo -MD -MP -MF "$(DEPDIR)/libamdis_la-AdaptParaReal.Tpo" -c -o libamdis_la-AdaptParaReal.lo `test -f '$(SOURCE_DIR)/parareal/AdaptParaReal.cc' || echo '$(srcdir)/'`$(SOURCE_DIR)/parareal/AdaptParaReal.cc; \
@am__fastdepCXX_TRUE@ then mv -f "$(DEPDIR)/libamdis_la-AdaptParaReal.Tpo" "$(DEPDIR)/libamdis_la-AdaptParaReal.Plo"; else rm -f "$(DEPDIR)/libamdis_la-AdaptParaReal.Tpo"; exit 1; fi
......
AMDiS/src/Debug.cc 0 → 100644
View file @ 334a275f
#include <boost/lexical_cast.hpp>
#include "Debug.h"
#include "DOFVector.h"
#include "MacroElement.h"
#include "VtkWriter.h"
namespace AMDiS {
namespace debug {
#ifdef HAVE_PARALLEL_DOMAIN_AMDIS
void writeLocalElementDofs(int rank, int elIdx, FiniteElemSpace *feSpace)
{
using boost::lexical_cast;
if (MPI::COMM_WORLD.Get_rank() == rank) {
DOFVector<double> tmp(feSpace, "tmp");
colorDofVectorByLocalElementDofs(tmp, feSpace->getMesh(), elIdx);
VtkWriter::writeFile(tmp, "tmp" + lexical_cast<std::string>(elIdx) + ".vtu");
}
}
void writeDofMesh(int rank, DegreeOfFreedom dof, FiniteElemSpace *feSpace)
{
using boost::lexical_cast;
if (MPI::COMM_WORLD.Get_rank() == rank) {
DOFVector<double> tmp(feSpace, "tmp");
tmp.set(0.0);
tmp[dof] = 1.0;
VtkWriter::writeFile(tmp, "dofmesh" + lexical_cast<std::string>(rank) + ".vtu");
}
}
void writeMesh(FiniteElemSpace *feSpace, int rank, std::string filename)
{
using boost::lexical_cast;
int myRank = MPI::COMM_WORLD.Get_rank();
if (rank == -1 || myRank == rank) {
DOFVector<double> tmp(feSpace, "tmp");
VtkWriter::writeFile(tmp, filename + lexical_cast<std::string>(myRank) + ".vtu");
}
}
#endif
void colorDofVectorByLocalElementDofs(DOFVector<double>& vec, Element *el)
{
// === Get local indices of the given element. ===
const BasisFunction *basisFcts = vec.getFESpace()->getBasisFcts();
int nBasisFcts = basisFcts->getNumber();
std::vector<DegreeOfFreedom> localDofs(nBasisFcts);
basisFcts->getLocalIndices(el, vec.getFESpace()->getAdmin(), localDofs);
// === Set the values of the dof vector. ===
vec.set(0.0);
for (int i = 0; i < nBasisFcts; i++)
vec[localDofs[i]] = static_cast<double>(i);
}
bool colorDofVectorByLocalElementDofs(DOFVector<double>& vec, Mesh *mesh,
int elIndex)
{
FUNCNAME("colorDofVectorByLocalElementDofs()");
TraverseStack stack;
ElInfo *elInfo = stack.traverseFirst(mesh, -1, Mesh::CALL_LEAF_EL);
while (elInfo) {
if (elInfo->getElement()->getIndex() == elIndex) {
colorDofVectorByLocalElementDofs(vec, elInfo->getElement());
return true;
}
elInfo = stack.traverseNext(elInfo);
}
return false;
}
Element* getDofIndexElement(FiniteElemSpace *feSpace, DegreeOfFreedom dof)
{
const BasisFunction* basFcts = feSpace->getBasisFcts();
int nBasFcts = basFcts->getNumber();
std::vector<DegreeOfFreedom> dofVec(nBasFcts);
TraverseStack stack;
ElInfo *elInfo = stack.traverseFirst(feSpace->getMesh(), -1,
Mesh::CALL_EVERY_EL_PREORDER);
while (elInfo) {
basFcts->getLocalIndices(elInfo->getElement(), feSpace->getAdmin(), dofVec);
for (int i = 0; i < nBasFcts; i++)
if (dofVec[i] == dof)
return elInfo->getElement();
elInfo = stack.traverseNext(elInfo);
}
return NULL;
}
Element* getLevel0ParentElement(Mesh *mesh, Element *el)
{
TraverseStack stack;
ElInfo *elInfo = stack.traverseFirst(mesh, -1, Mesh::CALL_EVERY_EL_PREORDER);
while (elInfo) {
if (elInfo->getElement() == el)
return elInfo->getMacroElement()->getElement();
elInfo = stack.traverseNext(elInfo);
}
return NULL;
}
void printInfoByDof(FiniteElemSpace *feSpace, DegreeOfFreedom dof)
{
Element *el = getDofIndexElement(feSpace, dof);
Element *parEl = getLevel0ParentElement(feSpace->getMesh(), el);
std::cout << "DOF-INFO: dof = " << dof
<< " elidx = " << el->getIndex()
<< " pelidx = " << parEl->getIndex() << std::endl;
TraverseStack stack;
ElInfo *elInfo = stack.traverseFirst(feSpace->getMesh(), -1,
Mesh::CALL_EVERY_EL_PREORDER);
while (elInfo) {
if (elInfo->getElement()->getIndex() == parEl->getIndex())
std::cout << "EL INFO TO " << parEl->getIndex() << ": "
<< elInfo->getType() << std::endl;
elInfo = stack.traverseNext(elInfo);
}
}
} // namespace debug
} // namespace AMDiS
AMDiS/src/Debug.h 0 → 100644
View file @ 334a275f
// ============================================================================
// == ==
// == AMDiS - Adaptive multidimensional simulations ==
// == ==
// ============================================================================
// == ==
// == TU Dresden ==
// == ==
// == Institut fr Wissenschaftliches Rechnen ==
// == Zellescher Weg 12-14 ==
// == 01069 Dresden ==
// == germany ==
// == ==
// ============================================================================
// == ==
// == https://gforge.zih.tu-dresden.de/projects/amdis/ ==
// == ==
// ============================================================================
/** \file Debug.h */
#ifndef AMDIS_DEBUG_H
#define AMDIS_DEBUG_H
#include "AMDiS_fwd.h"
#include "Global.h"
namespace AMDiS {
namespace debug {
#ifdef HAVE_PARALLEL_DOMAIN_AMDIS
void writeLocalElementDofs(int rank, int elIdx, FiniteElemSpace *feSpace);
void writeMesh(FiniteElemSpace *feSpace, int rank, std::string filename);
void writeDofMesh(int rank, DegreeOfFreedom dof, FiniteElemSpace *feSpace);
#endif
void colorDofVectorByLocalElementDofs(DOFVector<double>& vec, Element *el);
bool colorDofVectorByLocalElementDofs(DOFVector<double>& vec,
Mesh *mesh,
int elIndex);
Element* getDofIndexElement(FiniteElemSpace *feSpace, DegreeOfFreedom dof);
Element* getLevel0ParentElement(Mesh *mesh, Element *el);
void printInfoByDof(FiniteElemSpace *feSpace, DegreeOfFreedom dof);
}
}
#endif
AMDiS/src/ParallelDomainBase.cc
View file @ 334a275f
#include <algorithm>
#include <boost/lexical_cast.hpp>
#include "ParallelDomainBase.h"
#include "ParMetisPartitioner.h"
......@@ -20,6 +19,7 @@
#include "VertexVector.h"
#include "StdMpi.h"
#include "MeshStructure.h"
#include "Debug.h"
#include "petscksp.h"
......@@ -119,6 +119,10 @@ namespace AMDiS {
removeMacroElements();
// === Reset all DOFAdmins of the mesh. ===
updateDofAdmins();
// === If in debug mode, make some tests. ===
#if (DEBUG != 0)
......@@ -127,11 +131,9 @@ namespace AMDiS {
dbgTestInteriorBoundary();
dbgTestCommonDofs(true);
MSG("Debug mode tests finished!\n");
#endif
// === Reset all DOFAdmins of the mesh. ===
updateDofAdmins();
debug::writeMesh(feSpace, -1, "macromesh");
#endif
// === Create periodic dof mapping, if there are periodic boundaries. ===
......@@ -167,17 +169,17 @@ namespace AMDiS {
// There must be always more allocated DOFs than used DOFs in DOFAdmin. Otherwise,
// it is not possible to define a first DOF hole.
if (static_cast<unsigned int>(admin.getSize()) == mapLocalGlobalDOFs.size())
if (static_cast<unsigned int>(admin.getSize()) == mapLocalGlobalDofs.size())
admin.enlargeDOFLists();
for (int j = 0; j < admin.getSize(); j++)
admin.setDOFFree(j, true);
for (unsigned int j = 0; j < mapLocalGlobalDOFs.size(); j++)
for (unsigned int j = 0; j < mapLocalGlobalDofs.size(); j++)
admin.setDOFFree(j, false);
admin.setUsedSize(mapLocalGlobalDOFs.size());
admin.setUsedCount(mapLocalGlobalDOFs.size());
admin.setFirstHole(mapLocalGlobalDOFs.size());
admin.setUsedSize(mapLocalGlobalDofs.size());
admin.setUsedCount(mapLocalGlobalDofs.size());
admin.setFirstHole(mapLocalGlobalDofs.size());
}
}
......@@ -236,7 +238,7 @@ namespace AMDiS {
values.clear();
// Global index of the current row dof.
int globalRowDof = mapLocalGlobalDOFs[*cursor];
int globalRowDof = mapLocalGlobalDofs[*cursor];
// Test if the current row dof is a periodic dof.
bool periodicRow = (periodicDof.count(globalRowDof) > 0);
......@@ -251,7 +253,7 @@ namespace AMDiS {
// Set only non null values.
if (value(*icursor) != 0.0) {
// Global index of the current column index.
int globalColDof = mapLocalGlobalDOFs[col(*icursor)];
int globalColDof = mapLocalGlobalDofs[col(*icursor)];
// Calculate the exact position of the column index in the petsc matrix.
int colIndex = globalColDof * dispMult + dispAddCol;
......@@ -337,7 +339,7 @@ namespace AMDiS {
DOFVector<double>::Iterator dofIt(vec, USED_DOFS);
for (dofIt.reset(); !dofIt.end(); ++dofIt) {
// Calculate global row index of the dof.
int globalRow = mapLocalGlobalDOFs[dofIt.getDOFIndex()];
int globalRow = mapLocalGlobalDofs[dofIt.getDOFIndex()];
// Calculate petsc index of the row dof.
int index = globalRow * dispMult + dispAdd;
......@@ -368,6 +370,8 @@ namespace AMDiS {
clock_t first = clock();
// === Create PETSc vector (rhs, solution and a temporary vector). ===
VecCreate(PETSC_COMM_WORLD, &petscRhsVec);
VecSetSizes(petscRhsVec, nRankRows, nOverallRows);
VecSetType(petscRhsVec, VECMPI);
......@@ -381,19 +385,25 @@ namespace AMDiS {
VecSetType(petscTmpVec, VECMPI);
using mtl::tag::row; using mtl::tag::nz; using mtl::begin; using mtl::end;
namespace traits= mtl::traits;
namespace traits = mtl::traits;
typedef DOFMatrix::base_matrix_type Matrix;
typedef std::vector<std::pair<int, int> > MatrixNnzEntry;
int d_nnz[nRankRows];
int o_nnz[nRankRows];
std::map<int, std::vector< std::pair<int, int> > > sendMatrixEntry;
for (int i = 0; i < nRankRows; i++) {
d_nnz[i] = 0;
o_nnz[i] = 0;
}
MSG("Is rank DOF: %d\n", isRankDof[6717 - rstart * nComponents]);
// Stores to each rank a list of nnz entries (i.e. pairs of row and column index)
// that this rank will send to. This nnz entries will be assembled on this rank,
// but because the row DOFs are not DOFs of this rank they will be send to the
// owner of the row DOFs.
std::map<int, MatrixNnzEntry> sendMatrixEntry;
for (int i = 0; i < nComponents; i++) {
for (int j = 0; j < nComponents; j++) {
if ((*mat)[i][j]) {
......@@ -408,41 +418,63 @@ namespace AMDiS {
for (cursor_type cursor = begin<row>(bmat),
cend = end<row>(bmat); cursor != cend; ++cursor) {
int r = mapLocalGlobalDOFs[*cursor] * nComponents + i;
// Map the local row number to the global DOF index and create from it
// the global PETSc row index of this DOF.
int petscRowIdx = mapLocalGlobalDofs[*cursor] * nComponents + i;
if (isRankDof[*cursor]) {
r -= rstart * nComponents;
// === The current row DOF is a rank dof, so create the corresponding ===
// === nnz values directly on rank's nnz data. ===
// This is the local row index of the local PETSc matrix.
int localPetscRowIdx = petscRowIdx - rstart * nComponents;
#if (DEBUG != 0)
if (r < 0 || r >= nRankRows) {
if (localPetscRowIdx < 0 || localPetscRowIdx >= nRankRows) {
std::cout << "ERROR in rank: " << mpiRank << std::endl;
std::cout << " Wrong r = " << r << " " << *cursor << " "
<< mapLocalGlobalDOFs[*cursor] << " "
std::cout << " Wrong r = " << localPetscRowIdx << " " << *cursor
<< " " << mapLocalGlobalDofs[*cursor] << " "
<< nRankRows << std::endl;
ERROR_EXIT("Should not happen!\n");
}
#endif
// Traverse all non zero entries in this row.
for (icursor_type icursor = begin<nz>(cursor),
icend = end<nz>(cursor); icursor != icend; ++icursor) {
if (value(*icursor) != 0.0) {
int c = mapLocalGlobalDOFs[col(*icursor)] * nComponents + j;
int petscColIdx = mapLocalGlobalDofs[col(*icursor)] * nComponents + j;
if (c >= rstart * nComponents &&
c < rstart * nComponents + nRankRows)
d_nnz[r]++;
// The row DOF is a rank DOF, if also the column is a rank DOF,
// increment the d_nnz values for this row, otherwise the o_nnz value.
if (petscColIdx >= rstart * nComponents &&
petscColIdx < rstart * nComponents + nRankRows)
d_nnz[localPetscRowIdx]++;
else
o_nnz[r]++;
o_nnz[localPetscRowIdx]++;
}
}
} else {
int sendToRank = -1;
// === The current row DOF is not a rank dof, i.e., it will be created ===
// === on this rank, but after this it will be send to another rank ===
// === matrix. So we need to send also the corresponding nnz structure ===
// === of this row to the corresponding rank. ===
// Find out who is the member of this DOF.
int sendToRank = -1;
for (RankToDofContainer::iterator it = recvDofs.begin();
it != recvDofs.end(); ++it) {
for (DofContainer::iterator dofIt = it->second.begin();
dofIt != it->second.end(); ++dofIt) {
if (**dofIt == *cursor) {
if (petscRowIdx == 6717) {
debug::writeDofMesh(mpiRank, *cursor, feSpace);
MSG("SEND DOF TO: %d/%d\n", it->first, *cursor);
}
sendToRank = it->first;
break;
}
......@@ -454,117 +486,56 @@ namespace AMDiS {
TEST_EXIT_DBG(sendToRank != -1)("Should not happen!\n");
// Send all non zero entries to the member of the row DOF.
for (icursor_type icursor = begin<nz>(cursor),
icend = end<nz>(cursor); icursor != icend; ++icursor) {
if (value(*icursor) != 0.0) {
int c = mapLocalGlobalDOFs[col(*icursor)] * nComponents + j;
int petscColIdx = mapLocalGlobalDofs[col(*icursor)] * nComponents + j;
sendMatrixEntry[sendToRank].push_back(std::make_pair(r, c));
sendMatrixEntry[sendToRank].
push_back(std::make_pair(petscRowIdx, petscColIdx));
}
}
}
}
}
}
}
MPI::Request request[sendDofs.size() + recvDofs.size()];
int requestCounter = 0;
std::vector<int*> sendBuffers;
sendBuffers.reserve(recvDofs.size());
for (RankToDofContainer::iterator it = recvDofs.begin();
it != recvDofs.end(); ++it) {
int nSend = sendMatrixEntry[it->first].size();
request[requestCounter++] = mpiComm.Isend(&nSend, 1, MPI_INT, it->first, 0);
if (nSend > 0) {
int *sendbuf = new int[nSend * 2];
for (int i = 0; i < nSend; i++) {
sendbuf[i * 2] = sendMatrixEntry[it->first][i].first;
sendbuf[i * 2 + 1] = sendMatrixEntry[it->first][i].second;
}
sendBuffers.push_back(sendbuf);
} else {
sendBuffers.push_back(NULL);
}
}
std::vector<int> recvSize;
recvSize.reserve(sendDofs.size());
int i = 0;
for (RankToDofContainer::iterator it = sendDofs.begin();
it != sendDofs.end(); ++it)
request[requestCounter++] =
mpiComm.Irecv(&(recvSize[i++]), 1, MPI_INT, it->first, 0);
MPI::Request::Waitall(requestCounter, request);
requestCounter = 0;
i = 0;
for (RankToDofContainer::iterator it = recvDofs.begin();
it != recvDofs.end(); ++it) {
int nSend = sendMatrixEntry[it->first].size();
if (nSend > 0)
request[requestCounter++] =
mpiComm.Isend(sendBuffers[i], nSend * 2, MPI_INT, it->first, 0);
i++;
} // if (isRankDof[*cursor]) ... else ...
} // for each row in mat[i][j]
} // if mat[i][j]
}
}
std::vector<int*> recvBuffers;
recvBuffers.reserve(sendDofs.size());
i = 0;
for (RankToDofContainer::iterator it = sendDofs.begin();
it != sendDofs.end(); ++it) {
if (recvSize[i] > 0) {
int *recvbuf = new int[recvSize[i] * 2];
recvBuffers.push_back(recvbuf);
// === Send and recv the nnz row structure to/from other ranks. ===
request[requestCounter++] =
mpiComm.Irecv(recvbuf, recvSize[i] * 2, MPI_INT, it->first, 0);
} else {
recvBuffers.push_back(NULL);
}
i++;
}
MPI::Request::Waitall(requestCounter, request);
StdMpi<MatrixNnzEntry, MatrixNnzEntry> stdMpi(mpiComm);
stdMpi.prepareCommunication(true);
stdMpi.send(sendMatrixEntry);
stdMpi.recv(sendDofs);
stdMpi.startCommunication<int>(MPI_INT);
for (int j = 0; j < static_cast<int>(sendBuffers.size()); j++)
if (sendBuffers[j])
delete [] sendBuffers[j];
// === Evaluate the nnz structure this rank got from other ranks and add it to ===
// === the PETSc nnz data structure. ===
i = 0;
for (RankToDofContainer::iterator it = sendDofs.begin();
it != sendDofs.end(); ++it) {
if (recvSize[i] > 0) {
for (int j = 0; j < recvSize[i]; j++) {
int r = recvBuffers[i][j * 2];
int c = recvBuffers[i][j * 2 + 1];
for (std::map<int, MatrixNnzEntry>::iterator it = stdMpi.getRecvData().begin();
it != stdMpi.getRecvData().end(); ++it) {
if (it->second.size() > 0) {
for (unsigned int i = 0; i < it->second.size(); i++) {
int r = it->second[i].first;
int c = it->second[i].second;
r -= rstart * nComponents;
int localRowIdx = r - rstart * nComponents;
TEST_EXIT_DBG(r >= 0 && r < nRankRows)("Should not happen!\n");
TEST_EXIT_DBG(localRowIdx >= 0 && localRowIdx < nRankRows)
("Got row index %d/%d (nRankRows = %d) from rank %d. Should not happen!\n",
r, localRowIdx, nRankRows, it->first);
if (c < rstart * nComponents || c >= rstart * nComponents + nRankRows)
o_nnz[r]++;
o_nnz[localRowIdx]++;
else
d_nnz[r]++;
d_nnz[localRowIdx]++;
}
delete [] recvBuffers[i];
}
}
i++;
}
// === Create PETSc matrix with the computed nnz data structure. ===
MatCreateMPIAIJ(PETSC_COMM_WORLD, nRankRows, nRankRows, nOverallRows, nOverallRows,
0, d_nnz, 0, o_nnz, &petscMatrix);
......@@ -576,9 +547,7 @@ namespace AMDiS {
TEST_EXIT(b == rstart * nComponents + nRankRows)("Wrong matrix ownership range!\n");
#endif
using mtl::tag::major; using mtl::tag::nz; using mtl::begin; using mtl::end;
namespace traits= mtl::traits;
typedef DOFMatrix::base_matrix_type Matrix;
// === Transfer values from DOF matrices to the PETSc matrix. ===
for (int i = 0; i < nComponents; i++)
for (int j = 0; j < nComponents; j++)
......@@ -588,6 +557,8 @@ namespace AMDiS {
MatAssemblyBegin(petscMatrix, MAT_FINAL_ASSEMBLY);
MatAssemblyEnd(petscMatrix, MAT_FINAL_ASSEMBLY);
// === Transfer values from DOF vector to the PETSc vector. ===
for (int i = 0; i < nComponents; i++)
setDofVector(petscRhsVec, vec->getDOFVector(i), nComponents, i);
......@@ -789,7 +760,7 @@ namespace AMDiS {
#if (DEBUG != 0)
writeMesh(feSpace);
debug::writeMesh(feSpace, -1, "mesh");
#endif
INFO(info, 8)("Parallel mesh adaption needed %.5f seconds\n",
......@@ -798,6 +769,8 @@ namespace AMDiS {