PetscSolverGlobalBlockMatrix.cc 8.11 KB
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//
// 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.


#include "parallel/PetscSolverGlobalBlockMatrix.h"
#include "parallel/StdMpi.h"
#include "parallel/MpiHelper.h"

namespace AMDiS {

  void PetscSolverGlobalBlockMatrix::fillPetscMatrix(Matrix<DOFMatrix*> *mat)
  {
    FUNCNAME("PetscSolverGlobalBlockMatrix::fillPetscMatrix()");

    TEST_EXIT_DBG(meshDistributor)("No mesh distributor object defined!\n");
    TEST_EXIT_DBG(mat)("No DOF matrix defined!\n");

    double wtime = MPI::Wtime();
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    const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
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    nComponents = mat->getNumRows();
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    int nRankRows = meshDistributor->getNumberRankDofs(feSpace);
    int nOverallRows = meshDistributor->getNumberOverallDofs(feSpace);
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#if (DEBUG != 0)
    MSG("Fill petsc matrix 1 needed %.5f seconds\n", MPI::Wtime() - wtime);
#endif

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    if (nBlocks == -1) {
      nBlocks = nComponents;
      for (int i = 0; i < nBlocks; i++)
	componentInBlock[i] = i;
    }

    vector<int> compNthInBlock(nComponents, 0);
    vector<int> blockSize(nBlocks, 0);

    for (int i = 0; i < nComponents; i++) {
      compNthInBlock[i] = blockSize[componentInBlock[i]];
      blockSize[componentInBlock[i]]++;
    }

    nestMat.resize(nBlocks * nBlocks);
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    // === Transfer values from DOF matrices to the PETSc matrix. === 

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    for (int i = 0; i < nBlocks; i++)
      for (int j = 0; j < nBlocks; j++)
	MatCreateMPIAIJ(PETSC_COMM_WORLD,
			nRankRows * blockSize[i], nRankRows * blockSize[j],
			nOverallRows * blockSize[i], nOverallRows * blockSize[j],
			30 * blockSize[i], PETSC_NULL, 
			30 * blockSize[j], PETSC_NULL,
			&(nestMat[i * nBlocks + j]));
			
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    for (int i = 0; i < nComponents; i++)
      for (int j = 0; j < nComponents; j++)
	if ((*mat)[i][j]) {
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	  int idx = componentInBlock[i] * nBlocks + componentInBlock[j];
	  setDofMatrix(nestMat[idx], (*mat)[i][j], 
		       compNthInBlock[i], compNthInBlock[j]);
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	}

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    for (int i = 0; i < nBlocks; i++) {
      for (int j = 0; j < nBlocks; j++) {
	int idx = i * nBlocks + j;
	if (nestMat[idx]) {
	  MatAssemblyBegin(nestMat[idx], MAT_FINAL_ASSEMBLY);
	  MatAssemblyEnd(nestMat[idx], MAT_FINAL_ASSEMBLY);
	}
      }
    }	  
	

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    MatCreateNest(PETSC_COMM_WORLD, 
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		  nBlocks, PETSC_NULL, nBlocks, PETSC_NULL, 
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		  &(nestMat[0]), &petscMatrix);
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#if (DEBUG != 0)
    MSG("Fill petsc matrix 2 needed %.5f seconds\n", MPI::Wtime() - wtime);
#endif

    MatAssemblyBegin(petscMatrix, MAT_FINAL_ASSEMBLY);
    MatAssemblyEnd(petscMatrix, MAT_FINAL_ASSEMBLY);

    // === Init PETSc solver. ===
    KSPCreate(PETSC_COMM_WORLD, &solver);
    KSPSetOperators(solver, petscMatrix, petscMatrix, SAME_NONZERO_PATTERN); 
    KSPSetFromOptions(solver);
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    KSPGetPC(solver, &pc);
    setBlockPreconditioner(pc);
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    MSG("Fill petsc matrix needed %.5f seconds\n", MPI::Wtime() - wtime);
  }


  void PetscSolverGlobalBlockMatrix::fillPetscRhs(SystemVector *vec)
  {
    FUNCNAME("PetscSolverGlobalBlockMatrix::fillPetscRhs()");

    TEST_EXIT_DBG(vec)("NO DOF vector defined!\n");

    nComponents = vec->getSize();
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    const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
    int nRankRows = meshDistributor->getNumberRankDofs(feSpace);
    int nOverallRows = meshDistributor->getNumberOverallDofs(feSpace);
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    nestVec.resize(nComponents);
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    for (int i = 0; i < nComponents; i++) {
      VecCreateMPI(PETSC_COMM_WORLD, nRankRows, nOverallRows, &(nestVec[i]));
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      setDofVector(nestVec[i], vec->getDOFVector(i));
      
      VecAssemblyBegin(nestVec[i]);
      VecAssemblyEnd(nestVec[i]);
    }

    VecCreateNest(PETSC_COMM_WORLD, nComponents, PETSC_NULL, 
		  &(nestVec[0]), &petscRhsVec);
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    VecAssemblyBegin(petscRhsVec);
    VecAssemblyEnd(petscRhsVec);
  }


  void PetscSolverGlobalBlockMatrix::solvePetscMatrix(SystemVector &vec, 
						      AdaptInfo *adaptInfo)
  {
    FUNCNAME("PetscSolverGlobalBlockMatrix::solvePetscMatrix()");

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    const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);
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    VecDuplicate(petscRhsVec, &petscSolVec);

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    // PETSc.
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    KSPSolve(solver, petscRhsVec, petscSolVec);
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    // === Transfere values from PETSc's solution vectors to the DOF vectors. ===
    for (int i = 0; i < nComponents; i++) {
      DOFVector<double> &dofvec = *(vec.getDOFVector(i));
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      Vec tmp;
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      VecNestGetSubVec(petscSolVec, i, &tmp);
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      int nRankDofs = meshDistributor->getNumberRankDofs(feSpace);
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      PetscScalar *vecPointer;
      VecGetArray(tmp, &vecPointer);

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      for (int j = 0; j < nRankDofs; j++)
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	dofvec[meshDistributor->mapLocalToDof(feSpace, j)] = vecPointer[j]; 
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      VecRestoreArray(tmp, &vecPointer);
    }
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    // === Synchronize DOFs at common DOFs, i.e., DOFs that correspond to ===
    // === more than one partition.                                       ===
    meshDistributor->synchVector(vec);


    // === Destroy PETSc's variables. ===
    VecDestroy(&petscRhsVec);
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    for (int i = 0; i < nComponents; i++)
      VecDestroy(&(nestVec[i]));
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    VecDestroy(&petscSolVec);
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  }


  void PetscSolverGlobalBlockMatrix::destroyMatrixData()
  {
    FUNCNAME("PetscSolverGlobalBlockMatrix::destroyMatrixData()");

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    for (unsigned int i = 0; i < nestMat.size(); i++)
      if (nestMat[i] != PETSC_NULL)
	MatDestroy(&(nestMat[i]));

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    MatDestroy(&petscMatrix);
    KSPDestroy(&solver);
  }


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  void PetscSolverGlobalBlockMatrix::setDofMatrix(Mat& petscMat, 
						  DOFMatrix* mat,
						  int dispRowBlock, 
						  int dispColBlock)
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  {
    FUNCNAME("PetscSolverGlobalBlockMatrix::setDofMatrix()");

    TEST_EXIT(mat)("No DOFMatrix!\n");
    TEST_EXIT(petscMat)("No PETSc matrix!\n");

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    const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);

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    using mtl::tag::row; using mtl::tag::nz; using mtl::begin; using mtl::end;
    namespace traits = mtl::traits;
    typedef DOFMatrix::base_matrix_type Matrix;

    traits::col<Matrix>::type col(mat->getBaseMatrix());
    traits::const_value<Matrix>::type value(mat->getBaseMatrix());

    typedef traits::range_generator<row, Matrix>::type cursor_type;
    typedef traits::range_generator<nz, cursor_type>::type icursor_type;

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    int dispRowIndex = meshDistributor->getNumberRankDofs(feSpace) * dispRowBlock;
    int dispColIndex = meshDistributor->getNumberRankDofs(feSpace) * dispColBlock;

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    vector<int> cols;
    vector<double> values;
    cols.reserve(300);
    values.reserve(300);
    
    // === Traverse all rows of the dof matrix and insert row wise the values ===
    // === to the PETSc matrix.                                               ===

    for (cursor_type cursor = begin<row>(mat->getBaseMatrix()), 
	   cend = end<row>(mat->getBaseMatrix()); cursor != cend; ++cursor) {

      // Global index of the current row DOF.
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      int rowIndex = 
	meshDistributor->mapDofToGlobal(feSpace, *cursor) + dispRowIndex;
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      cols.clear();
      values.clear();
      
      for (icursor_type icursor = begin<nz>(cursor), icend = end<nz>(cursor); 
	   icursor != icend; ++icursor) {	
	// Global index of the current column index.
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	int colIndex = 
	  meshDistributor->mapDofToGlobal(feSpace, col(*icursor)) + dispColIndex;
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	// Ignore all zero entries, expect it is a diagonal entry.
	if (value(*icursor) == 0.0 && rowIndex != colIndex)
	  continue;
	
	// Calculate the exact position of the column index in the PETSc matrix.
	cols.push_back(colIndex);
	values.push_back(value(*icursor));
      }
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      MatSetValues(petscMat, 1, &rowIndex, cols.size(), 
 		   &(cols[0]), &(values[0]), ADD_VALUES);	
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    }
  }
  
  
  void PetscSolverGlobalBlockMatrix::setDofVector(Vec& petscVec, 
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						  DOFVector<double>* vec)
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  {
    FUNCNAME("PetscSolverGlobalBlockMatrix::setDofVector()");

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    const FiniteElemSpace *feSpace = meshDistributor->getFeSpace(0);

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    // Traverse all used DOFs in the dof vector.
    DOFVector<double>::Iterator dofIt(vec, USED_DOFS);
    for (dofIt.reset(); !dofIt.end(); ++dofIt) {
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      int index = meshDistributor->mapDofToGlobal(feSpace, dofIt.getDOFIndex());
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      double value = *dofIt;

      VecSetValues(petscVec, 1, &index, &value, ADD_VALUES);
    }
  }

}