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Commit 24469e7d authored by Thomas Witkowski's avatar Thomas Witkowski
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Cleanup of last big merge!

parent 356c16ab
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AMDiS/bin/Makefile.am
View file @ 24469e7d
......@@ -65,25 +65,17 @@ endif
libamdis_la_SOURCES = \
$(PARALLEL_AMDIS_SOURCES) \
$(SOURCE_DIR)/MultiGridPreconWrapper.h $(SOURCE_DIR)/MultiGridPreconWrapper.cc \
$(SOURCE_DIR)/LagrangeInterpolRestrict.h \
$(SOURCE_DIR)/InterpolRestrictMatrix.h $(SOURCE_DIR)/InterpolRestrictMatrix.cc \
$(SOURCE_DIR)/DOFIndexed.h $(SOURCE_DIR)/DOFIndexed.cc \
$(SOURCE_DIR)/GNUPlotWriter.h $(SOURCE_DIR)/GNUPlotWriter.cc \
$(SOURCE_DIR)/SmootherBase.h \
$(SOURCE_DIR)/GSSMoother.h $(SOURCE_DIR)/GSSmoother.cc \
$(SOURCE_DIR)/JacobiSMoother.h $(SOURCE_DIR)/JacobiSmoother.cc \
$(SOURCE_DIR)/SparseVector.h $(SOURCE_DIR)/SparseVector.hh $(SOURCE_DIR)/SparseVector.cc \
$(SOURCE_DIR)/VertexVector.h $(SOURCE_DIR)/VertexVector.cc \
$(SOURCE_DIR)/PeriodicBC.h $(SOURCE_DIR)/PeriodicBC.cc \
$(SOURCE_DIR)/MultiGridSolverBase.h $(SOURCE_DIR)/MultiGridSolverBase.hh \
$(SOURCE_DIR)/MultiGridSolver.h $(SOURCE_DIR)/MultiGridSolver.cc \
$(SOURCE_DIR)/Recovery.h $(SOURCE_DIR)/Recovery.cc \
$(SOURCE_DIR)/RecoveryEstimator.h $(SOURCE_DIR)/RecoveryEstimator.cc \
$(SOURCE_DIR)/ResidualEstimator.h $(SOURCE_DIR)/ResidualEstimator.cc \
$(SOURCE_DIR)/Cholesky.h $(SOURCE_DIR)/Cholesky.cc \
$(SOURCE_DIR)/AdaptBase.h $(SOURCE_DIR)/AdaptBase.cc \
$(SOURCE_DIR)/ProblemIterationInterface.h $(SOURCE_DIR)/StandardProblemIteration.h $(SOURCE_DIR)/StandardProblemIteration.cc \
$(SOURCE_DIR)/ProblemIterationInterface.h \
$(SOURCE_DIR)/StandardProblemIteration.h $(SOURCE_DIR)/StandardProblemIteration.cc \
$(SOURCE_DIR)/ProblemScal.h $(SOURCE_DIR)/ProblemScal.cc \
$(SOURCE_DIR)/ProblemVec.h $(SOURCE_DIR)/ProblemVec.cc \
$(SOURCE_DIR)/DualTraverse.h $(SOURCE_DIR)/DualTraverse.cc \
......@@ -95,7 +87,9 @@ $(SOURCE_DIR)/CreatorInterface.h \
$(SOURCE_DIR)/ElementFunction.h \
$(SOURCE_DIR)/ProblemInterpolScal.h $(SOURCE_DIR)/ProblemInterpolScal.cc \
$(SOURCE_DIR)/ProblemInterpolVec.h $(SOURCE_DIR)/ProblemInterpolVec.cc \
$(SOURCE_DIR)/Serializable.h $(SOURCE_DIR)/BallProject.h $(SOURCE_DIR)/CylinderProject.h \
$(SOURCE_DIR)/Serializable.h \
$(SOURCE_DIR)/BallProject.h \
$(SOURCE_DIR)/CylinderProject.h \
$(SOURCE_DIR)/MacroReader.h $(SOURCE_DIR)/MacroReader.cc \
$(SOURCE_DIR)/ValueReader.h $(SOURCE_DIR)/ValueReader.cc \
$(SOURCE_DIR)/Projection.h $(SOURCE_DIR)/Projection.cc \
......@@ -110,18 +104,17 @@ $(SOURCE_DIR)/SystemVector.h \
$(SOURCE_DIR)/MatrixVector.h $(SOURCE_DIR)/MatrixVector.cc \
$(SOURCE_DIR)/SurfaceQuadrature.h $(SOURCE_DIR)/SurfaceQuadrature.cc \
$(SOURCE_DIR)/LeafData.h $(SOURCE_DIR)/LeafData.cc \
$(SOURCE_DIR)/BoundaryManager.h $(SOURCE_DIR)/BoundaryManager.cc $(SOURCE_DIR)/BoundaryCondition.h \
$(SOURCE_DIR)/BoundaryManager.h $(SOURCE_DIR)/BoundaryManager.cc \
$(SOURCE_DIR)/BoundaryCondition.h \
$(SOURCE_DIR)/DirichletBC.h $(SOURCE_DIR)/DirichletBC.cc \
$(SOURCE_DIR)/RobinBC.h $(SOURCE_DIR)/RobinBC.cc \
$(SOURCE_DIR)/AbstractFunction.h \
$(SOURCE_DIR)/ProblemStatBase.h \
$(SOURCE_DIR)/MatVecMultiplier.cc \
$(SOURCE_DIR)/DOFContainer.h \
$(SOURCE_DIR)/FileWriter.h $(SOURCE_DIR)/FileWriter.hh $(SOURCE_DIR)/FileWriter.cc \
$(SOURCE_DIR)/ElementFileWriter.h $(SOURCE_DIR)/ElementFileWriter.cc \
$(SOURCE_DIR)/ElInfo.cc \
$(SOURCE_DIR)/ElInfoStack.h $(SOURCE_DIR)/ElInfoStack.cc \
$(SOURCE_DIR)/MatVecMultiplier.h \
$(SOURCE_DIR)/Operator.h $(SOURCE_DIR)/Operator.cc \
$(SOURCE_DIR)/Mesh.cc \
$(SOURCE_DIR)/AMDiS.h \
......
AMDiS/bin/Makefile.in
View file @ 24469e7d
This diff is collapsed.
AMDiS/src/AMDiS.h
View file @ 24469e7d
......@@ -48,7 +48,6 @@
#include "MacroElement.h"
#include "MacroWriter.h"
#include "Marker.h"
#include "MatVecMultiplier.h"
#include "MatrixVector.h"
#include "MemoryManager.h"
#include "MemoryPool.h"
......@@ -83,9 +82,7 @@
#include "RefinementManager2d.h"
#include "RefinementManager3d.h"
#include "RobinBC.h"
#include "SmootherBase.h"
#include "SolutionDataStorage.h"
#include "SparseVector.h"
#include "SurfaceOperator.h"
#include "SurfaceQuadrature.h"
#include "SystemVector.h"
......
AMDiS/src/AMDiS_fwd.h
View file @ 24469e7d
......@@ -44,13 +44,11 @@ namespace AMDiS {
class FileWriterInterface;
class FiniteElemSpace;
class IdentityPreconditioner;
class InterpolRestrictMatrix;
class ITL_BasePreconditioner;
class LeafDataPeriodic;
class LevelAdmin;
class Marker;
class Mesh;
class MultiGridSortSolver;
class OEMSolver;
class Operator;
class ProblemInstat;
......@@ -65,14 +63,12 @@ namespace AMDiS {
class VertexVector;
template<typename ReturnType, typename ArgumentType> class AbstractFunction;
template<typename VectorType> class MatVecMultiplier;
template<typename T> class DOFVectorBase;
template<typename T> class DOFVector;
template<typename T> class ITL_Preconditioner;
template<typename T> class Matrix;
template<typename T> class MatVecMultiplier;
template<typename T> class SolverMatrix;
template<typename T> class SparseVector;
template<typename T> class Vector;
template <typename ITLSolver> class ITL_OEMSolver;
......
AMDiS/src/BoxSmoother.h deleted 100644 → 0
View file @ 356c16ab
#ifndef AMDIS_BOXSMOOTHER_H
#define AMDIS_BOXSMOOTHER_H
#include "SmootherBase.h"
#include "MemoryManager.h"
#include "DOFMatrix.h"
#include "SparseVector.h"
#include "MatrixVector.h"
#include "Global.h"
#include "GaussElimination.h"
#include "FiniteElemSpace.h"
#include "GaussElimination.h"
#include <set>
namespace AMDiS {
class BoxSmoother
: public SmootherBase<Matrix<DOFMatrix*>,
Vector<SparseVector<double>*>,
Vector< std::set<DegreeOfFreedom>*> >
{
public:
MEMORY_MANAGED(BoxSmoother);
class Creator
: public SmootherCreator<Matrix<DOFMatrix*>,
Vector<SparseVector<double>*>,
Vector< std::set<DegreeOfFreedom>*> >
{
public:
MEMORY_MANAGED(Creator);
SmootherBase<Matrix<DOFMatrix*>,
Vector<SparseVector<double>*>,
Vector< std::set<DegreeOfFreedom>*> >*
create() {
return NEW BoxSmoother(this->name);
};
};
BoxSmoother(std::string name)
: SmootherBase<Matrix<DOFMatrix*>,
Vector<SparseVector<double>*>,
Vector< std::set<DegreeOfFreedom>*> >(name),
boxMatrix_(NULL),
boxSolution_(NULL),
boxRHS_(NULL),
numComponents_(0),
sumDOFs_(0)
{
directSolver_ =
NEW GaussElimination<Matrix<double>, Vector<double> >();
};
virtual ~BoxSmoother()
{
if(boxMatrix_) DELETE boxMatrix_;
if(boxSolution_) DELETE boxSolution_;
if(boxRHS_) DELETE boxRHS_;
DELETE directSolver_;
};
void smooth(Matrix<DOFMatrix*> *matrix,
Vector<SparseVector<double>*> *solution,
Vector<SparseVector<double>*> *rhs,
int iterations,
const Vector< std::set<DegreeOfFreedom>*> &dofSet)
{
FUNCNAME("BoxSmoother::smooth()");
ERROR_EXIT("Will be rewritten - Peter\n");
#if 0
int i, j, k;
// allocate memory
if(!boxMatrix_) {
numComponents_ = solution->getSize();
numDOFs_.resize(numComponents_);
sumDOFs_ = 0;
for(i = 0; i < numComponents_; i++) {
numDOFs_[i] = (*solution)[i]->getFESpace()->getBasisFcts()->getNumber();
sumDOFs_ += numDOFs_[i];
}
boxMatrix_ = NEW Matrix<double>(sumDOFs_, sumDOFs_);
boxSolution_ = NEW Vector<double>(sumDOFs_);
boxRHS_ = NEW Vector<double>(sumDOFs_);
}
// create local equation system
int boxSize = 0;
std::vector<int> offset(numComponents_, 0);
std::vector< std::map<DegreeOfFreedom, int> > indexOfDOF(numComponents_);
std::set<DegreeOfFreedom>::const_iterator dofIt, dofBegin, dofEnd;
std::vector<MatEntry>::iterator rowIt, rowBegin, rowEnd;
int pos;
for(i = 0; i < numComponents_; i++) {
if(dofSet[i]) {
offset[i] = boxSize;
boxSize += numDOFs_[i];
dofBegin = dofSet[i]->begin();
dofEnd = dofSet[i]->end();
pos = 0;
for(dofIt = dofBegin; dofIt != dofEnd; ++dofIt) {
indexOfDOF[i][*dofIt] = pos + 1;
// MSG("%d : %d, %d \n", *dofIt, i, pos);
++pos;
}
}
}
for(i = 0; i < boxSize; i++) {
for(j = 0; j < boxSize; j++) {
(*boxMatrix_)[i][j] = 0.0;
}
(*boxRHS_)[i] = 0.0;
}
pos = 0;
for(i = 0; i < numComponents_; i++) {
if(dofSet[i]) {
dofBegin = dofSet[i]->begin();
dofEnd = dofSet[i]->end();
for(dofIt = dofBegin; dofIt != dofEnd; ++dofIt) {
// fill box rhs
(*boxRHS_)[pos] = (*((*rhs)[i]))[*dofIt];
// fill box matrix
for(j = 0; j < numComponents_; j++) {
if((*matrix)[i][j] != NULL) {
rowBegin = (*((*matrix)[i][j]))[*dofIt].begin();
rowEnd = (*((*matrix)[i][j]))[*dofIt].end();
for(rowIt = rowBegin; rowIt != rowEnd; ++rowIt) {
if(rowIt->col == DOFMatrix::UNUSED_ENTRY) continue;
if(rowIt->col == DOFMatrix::NO_MORE_ENTRIES) break;
int ind = indexOfDOF[j][rowIt->col] - 1;
if(ind != -1) {
(*boxMatrix_)[pos][offset[j] + ind] = rowIt->entry;
} else {
(*boxRHS_)[pos] -=
rowIt->entry * (*((*solution)[j]))[rowIt->col];
}
}
} else {
for(k = 0; k < numDOFs_[j]; k++) {
(*boxMatrix_)[pos][offset[j] + k] = 0.0;
}
}
}
++pos;
}
}
}
// int a,b;
// for(i = 0; i < numComponents_; i++) {
// MSG("DOFs %d: ", i);
// dofBegin = dofSet[i]->begin();
// dofEnd = dofSet[i]->end();
// for(dofIt = dofBegin; dofIt != dofEnd; ++dofIt) {
// MSG("%d ", *dofIt);
// }
// MSG("\n");
// }
// for(a = 0; a < numComponents_; a++) {
// for(b = 0; b < numComponents_; b++) {
// MSG("matrix[%d][%d]:\n", a, b);
// if((*matrix)[a][b]) {
// (*matrix)[a][b]->print();
// MSG("solution[%d]\n", b);
// (*solution)[b]->print();
// MSG("rhs[%d]\n", a);
// (*rhs)[a]->print();
// }
// }
// }
// MSG("matrix:\n");
// for(a = 0; a < boxSize; a++) {
// for(b = 0; b < boxSize; b++) {
// MSG("%e ", (*boxMatrix_)[a][b]);
// }
// MSG("\n");
// }
// MSG("rhs:\n");
// for(a = 0; a < boxSize; a++) {
// MSG("%e\n", (*boxRHS_)[a]);
// }
// apply direct solver
directSolver_->solve(*boxMatrix_, *boxRHS_, *boxSolution_, boxSize);
// MSG("solution:\n");
// for(a = 0; a < boxSize; a++) {
// MSG("%e\n", (*boxSolution_)[a]);
// }
// WAIT_REALLY;
// copy solution
pos = 0;
for(i = 0; i < numComponents_; i++) {
dofBegin = dofSet[i]->begin();
dofEnd = dofSet[i]->end();
for(dofIt = dofBegin; dofIt != dofEnd; ++dofIt) {
(*((*solution)[i]))[*dofIt] = (*boxSolution_)[pos];
++pos;
}
}
#endif
};
protected:
Matrix<double> *boxMatrix_;
Vector<double> *boxSolution_;
Vector<double> *boxRHS_;
int numComponents_;
std::vector<int> numDOFs_;
int sumDOFs_;
DirectSolverInterface<Matrix<double>, Vector<double> > *directSolver_;
};
}
#endif
AMDiS/src/CreatorMap.cc
View file @ 24469e7d
......@@ -10,14 +10,8 @@
#include "ResidualEstimator.h"
#include "LeafData.h"
#include "SurfaceRegion_ED.h"
#include "MultiGridWrapper.h"
#include "DOFMatrix.h"
#include "SparseVector.h"
#include "GSSmoother.h"
#include "JacobiSmoother.h"
#include "ElementRegion_ED.h"
#include "BoxSmoother.h"
#include "MultiGridPreconWrapper.h"
#include "UmfPackSolver.h"
namespace AMDiS {
......@@ -64,12 +58,6 @@ namespace AMDiS {
creator = NEW ICPreconditioner::Creator;
addCreator("ic", creator);
#if 0
creator = NEW MGPreconWrapperScal::Creator;
addCreator("mg", creator);
#endif
}
......
AMDiS/src/DOFMatrix.cc
View file @ 24469e7d
......@@ -43,9 +43,8 @@ namespace AMDiS {
{
TEST_EXIT(rowFESpace)("no rowFESpace\n");
if (!colFESpace) {
if (!colFESpace)
colFESpace = rowFESpace;
}
if (rowFESpace && rowFESpace->getAdmin())
(const_cast<DOFAdmin*>(rowFESpace->getAdmin()))->addDOFIndexed(this);
......@@ -149,19 +148,22 @@ namespace AMDiS {
DOFMatrix& DOFMatrix::operator=(const DOFMatrix& rhs)
{
TEST_EXIT(rhs.inserter == 0 && inserter == 0)("Cannot copy during insertion");
rowFESpace = rhs.rowFESpace;
colFESpace = rhs.colFESpace;
operators = rhs.operators;
operatorFactor = rhs.operatorFactor;
matrix = rhs.matrix;
coupleMatrix = rhs.coupleMatrix;
/// The matrix values may only be copyed, if there is no active insertion.
if (rhs.inserter == 0 && inserter == 0)
matrix = rhs.matrix;
if (rhs.boundaryManager) {
boundaryManager = NEW BoundaryManager(*rhs.boundaryManager);
} else {
boundaryManager = NULL;
}
if (rhs.elementMatrix) {
elementMatrix = NEW ElementMatrix(rowFESpace->getBasisFcts()->getNumber(),
colFESpace->getBasisFcts()->getNumber());
......
AMDiS/src/DOFMatrix.h
View file @ 24469e7d
......@@ -22,10 +22,6 @@
#ifndef AMDIS_DOFMATRIX_H
#define AMDIS_DOFMATRIX_H
// ============================================================================
// ===== includes =============================================================
// ============================================================================
#include <vector>
#include <set>
#include <memory>
......@@ -49,110 +45,6 @@
namespace AMDiS {
// ===========================================================================
// ===== struct MatEntry =====================================================
// ===========================================================================
/** \brief
* Represents one entry of a DOFMatrix
*/
struct MatEntry
{
/** \brief
* column index of entry (if >= 0; else unused)
*/
DegreeOfFreedom col;
/** \brief
* matrix entry
*/
double entry;
};
/** \brief
* Is used to search for all entries of a matrix which column index is
* smaller than a given value.
*/
class MatEntryValueLess : public std::unary_function<MatEntry, bool> {
private:
const double value_;
public:
MatEntryValueLess(const double& value)
: value_(value)
{}
bool operator()(const MatEntry& m) {
return (fabs(m.entry) < value_);
}
};
/** \brief
* Is used to search for all entries of a matrix which value is smaller
* than a given value.
*/
class MatEntryColLess : public std::unary_function<MatEntry, bool> {
private:
const int col_;
public:
MatEntryColLess(const int& col)
: col_(col)
{}
bool operator()(const MatEntry& m) {
return (fabs(m.col) < col_);
}
};
/** \brief
* This function is required if two MatEntries are compared by their col
* entry (for example when sorting a vector of MatEntries).
*/
struct CmpMatEntryCol : public std::binary_function<MatEntry, MatEntry, bool> {
bool operator()(const MatEntry& m1, const MatEntry m2) const {
return m1.col < m2.col;
}
};
/** \brief
* This function compares two matrix entries by their values. It returns true,
* if the value of m2 is greater than the value of m1.
*/
struct CmpMatEntryValue : public std::binary_function<MatEntry, MatEntry, bool> {
bool operator()(const MatEntry& m1, const MatEntry m2) const {
return m1.entry < m2.entry;
}
};
/** \brief
* This function compares two matrix entries by their values. It returns true,
* if the value of m2 is greater than the value of m1.
*/
struct CmpMatEntryAbsValueLess : public std::binary_function<MatEntry, MatEntry, bool> {
bool operator()(const MatEntry& m1, const MatEntry m2) const {
return fabs(m1.entry) < fabs(m2.entry);
}
};
/** \brief
* This function compares two matrix entries by their values. It returns true,
* if the value of m1 is greater than the value of m2.
*/
struct CmpMatEntryAbsValueGreater : public std::binary_function<MatEntry, MatEntry, bool> {
bool operator()(const MatEntry& m1, const MatEntry m2) const {
return fabs(m1.entry) > fabs(m2.entry);
}
};
// ============================================================================
// ===== class DOFMatrix ======================================================
// ============================================================================
/** \ingroup DOFAdministration
* \brief
* A DOFMatrix is a sparse matrix representation for matrices that work
......@@ -175,28 +67,7 @@ namespace AMDiS {
typedef mtl::matrix::inserter<base_matrix_type> inserter_type;
private:
/** \ingroup DOFAdministration
* \brief
* Alias for DOFIterator< std::vector<MatEntry<T> > >. So one can access an
* iterator working on a DOFMatrix via DOFMatrix::Iterator
*/
class Iterator : public DOFIterator< std::vector<MatEntry> > {
public:
Iterator(DOFIndexed< std::vector<MatEntry> > *c,
DOFIteratorType type)
: DOFIterator< std::vector<MatEntry> >(c, type)
{}
};
/** \brief
* A MatrixRow represents one row of the sparse matrix. It is realized by
* a STL vector of MatEntry<T> objects
*/
typedef std::vector<MatEntry> MatrixRow;
/** \brief
* Symbolic constant for an unused matrix entry
*/
/// Symbolic constant for an unused matrix entry
static const int UNUSED_ENTRY = -1;
/** \brief
......@@ -208,28 +79,17 @@ namespace AMDiS {
public:
DOFMatrix();
/** \brief
* Constructs a DOFMatrix with name n and the given row and
* column FESpaces.
*/
DOFMatrix(const FiniteElemSpace* rowFESpace,
const FiniteElemSpace* colFESpace,
/// Constructs a DOFMatrix with name n and the given row and olumn FESpaces.
DOFMatrix(const FiniteElemSpace* rowFESpace, const FiniteElemSpace* colFESpace,
std::string n = "");
/** \brief
* Copy-Constructor
*/
/// Copy-Constructor
DOFMatrix(const DOFMatrix& rhs);
/** \brief
* Destructor
*/
/// Destructor
virtual ~DOFMatrix();
/** \brief
* operator=
*/
/// Assignment operator.
DOFMatrix& operator=(const DOFMatrix& rhs);
void copy(const DOFMatrix& rhs);
......@@ -249,12 +109,10 @@ namespace AMDiS {
// Only to get rid of the abstract functions, I hope they are not used
std::vector<bool>::iterator begin() {ERROR_EXIT("Shouldn't be used, only fake."); std::vector<bool> v; return v.begin();}
std::vector<bool>::iterator end() {ERROR_EXIT("Shouldn't be used, only fake."); std::vector<bool> v; return v.end();}
#if 1
bool dummy; // Must be deleted later
bool& operator[](int i) {ERROR_EXIT("Shouldn't be used, only fake."); return dummy;}
const bool& operator[](int i) const {ERROR_EXIT("Shouldn't be used, only fake."); return dummy;}
#endif
/// DOFMatrix does not need to be compressed before assembling, when using MTL4.
void compressDOFIndexed(int first, int last, std::vector<DegreeOfFreedom> &newDOF) {}
......@@ -459,12 +317,6 @@ namespace AMDiS {
int irow, int jcol, double entry,
bool add = true);
void addMatEntry(int row, MatEntry entry);
void addMatEntry(int row, int DegreeOfFreedom, double value);
void addRow(std::vector<MatEntry> row);
void removeRowsWithDBC(std::set<int> *rows);
/// Prints \ref matrix to stdout
......
AMDiS/src/DOFVector.h
View file @ 24469e7d
......@@ -22,10 +22,6 @@
#ifndef AMDIS_DOFVECTOR_H
#define AMDIS_DOFVECTOR_H
// ===========================================================================
// ===== includes ============================================================
// ===========================================================================
#include <vector>
#include <memory>
#include <list>
......@@ -51,10 +47,6 @@
namespace AMDiS {
// ===========================================================================
// ===== forward declarations ================================================
// ===========================================================================