PetscMatTools.hpp

/*

Copyright (c) 2005-2012, University of Oxford.
All rights reserved.

University of Oxford means the Chancellor, Masters and Scholars of the
University of Oxford, having an administrative office at Wellington
Square, Oxford OX1 2JD, UK.

This file is part of Chaste.

Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
 * Redistributions of source code must retain the above copyright notice,
   this list of conditions and the following disclaimer.
 * Redistributions in binary form must reproduce the above copyright notice,
   this list of conditions and the following disclaimer in the documentation
   and/or other materials provided with the distribution.
 * Neither the name of the University of Oxford nor the names of its
   contributors may be used to endorse or promote products derived from this
   software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

*/

#ifndef _PETSCMATTOOLS_HPP_
#define _PETSCMATTOOLS_HPP_

#include "UblasMatrixInclude.hpp" // needs to be 'first'
#include "PetscTools.hpp"
#include <vector>
#include <petscvec.h>
#include <petscmat.h>

class PetscMatTools
{
public:

    static void SetElement(Mat matrix, PetscInt row, PetscInt col, double value);

    static void AddToElement(Mat matrix, PetscInt row, PetscInt col, double value);

    static void Finalise(Mat matrix);

    static void SwitchWriteMode(Mat matrix);

    static void Display(Mat matrix);

    static void SetRow(Mat matrix, PetscInt row, double value);

    static void ZeroRowsWithValueOnDiagonal(Mat matrix, std::vector<unsigned>& rRows, double diagonalValue);

    static void ZeroRowsAndColumnsWithValueOnDiagonal(Mat matrix, std::vector<unsigned> rowColIndices, double diagonalValue);

    static void ZeroColumn(Mat matrix, PetscInt col);

    static void Zero(Mat matrix);

    static unsigned GetSize(Mat matrix);

    static void GetOwnershipRange(Mat matrix, PetscInt& lo, PetscInt& hi);

    static double GetElement(Mat matrix, PetscInt row, PetscInt col);

    static void SetOption(Mat matrix, MatOption option);

    static Vec GetMatrixRowDistributed(Mat matrix, unsigned rowIndex);

    static bool CheckEquality(const Mat mat1, const Mat mat2, double tol=1e-10);

    static bool CheckSymmetry(const Mat matrix, double tol=1e-10);

    template<size_t MATRIX_SIZE>
    static void AddMultipleValues(Mat matrix, unsigned* matrixRowAndColIndices, c_matrix<double, MATRIX_SIZE, MATRIX_SIZE>& rSmallMatrix)
    {
        PetscInt matrix_row_indices[MATRIX_SIZE];
        PetscInt num_rows_owned = 0;
        PetscInt global_row;
        PetscInt lo, hi;
        GetOwnershipRange(matrix, lo, hi);

        for (unsigned row = 0; row<MATRIX_SIZE; row++)
        {
            global_row = matrixRowAndColIndices[row];
            if (global_row >= lo && global_row < hi)
            {
                matrix_row_indices[num_rows_owned++] = global_row;
            }
        }

        if ( num_rows_owned == MATRIX_SIZE)
        {
            MatSetValues(matrix,
                         num_rows_owned,
                         matrix_row_indices,
                         MATRIX_SIZE,
                         (PetscInt*) matrixRowAndColIndices,
                         rSmallMatrix.data(),
                         ADD_VALUES);
        }
        else
        {
            // We need continuous data, if some of the rows do not belong to the processor their values
            // are not passed to MatSetValues
            double values[MATRIX_SIZE*MATRIX_SIZE];
            unsigned num_values_owned = 0;
            for (unsigned row = 0; row < MATRIX_SIZE; row++)
            {
                global_row = matrixRowAndColIndices[row];
                if (global_row >= lo && global_row < hi)
                {
                    for (unsigned col = 0; col < MATRIX_SIZE; col++)
                    {
                        values[num_values_owned++] = rSmallMatrix(row, col);
                    }
                }
            }

            MatSetValues(matrix,
                         num_rows_owned,
                         matrix_row_indices,
                         MATRIX_SIZE,
                         (PetscInt*) matrixRowAndColIndices,
                         values,
                         ADD_VALUES);
        }
    }
};

#endif //_PETSCMATTOOLS_HPP_