This file is indexed.

/usr/include/dolfin/la/PETScPreconditioner.h is in libdolfin1.3-dev 1.3.0+dfsg-2.

This file is owned by root:root, with mode 0o644.

The actual contents of the file can be viewed below.

  1
  2
  3
  4
  5
  6
  7
  8
  9
 10
 11
 12
 13
 14
 15
 16
 17
 18
 19
 20
 21
 22
 23
 24
 25
 26
 27
 28
 29
 30
 31
 32
 33
 34
 35
 36
 37
 38
 39
 40
 41
 42
 43
 44
 45
 46
 47
 48
 49
 50
 51
 52
 53
 54
 55
 56
 57
 58
 59
 60
 61
 62
 63
 64
 65
 66
 67
 68
 69
 70
 71
 72
 73
 74
 75
 76
 77
 78
 79
 80
 81
 82
 83
 84
 85
 86
 87
 88
 89
 90
 91
 92
 93
 94
 95
 96
 97
 98
 99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
// Copyright (C) 2010 Garth N. Wells
//
// This file is part of DOLFIN.
//
// DOLFIN is free software: you can redistribute it and/or modify
// it under the terms of the GNU Lesser General Public License as published by
// the Free Software Foundation, either version 3 of the License, or
// (at your option) any later version.
//
// DOLFIN is distributed in the hope that it will be useful,
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU Lesser General Public License for more details.
//
// You should have received a copy of the GNU Lesser General Public License
// along with DOLFIN. If not, see <http://www.gnu.org/licenses/>.
//
// Modified by Anders Logg 2011
//
// First added:  2010-02-25
// Last changed: 2011-10-19

#ifndef __DOLFIN_PETSC_PRECONDITIONER_H
#define __DOLFIN_PETSC_PRECONDITIONER_H

#ifdef HAS_PETSC

#include <string>
#include <vector>
#include <boost/shared_ptr.hpp>
#include <petscpc.h>

#include <dolfin/common/types.h>
#include <dolfin/common/Variable.h>
#include <dolfin/la/PETScObject.h>
#include <dolfin/parameter/Parameters.h>
#include "GenericPreconditioner.h"

namespace dolfin
{

  // Forward declarations
  class PETScKrylovSolver;
  class PETScSNESSolver;
  class VectorSpaceBasis;

  /// This class is a wrapper for configuring PETSc
  /// preconditioners. It does not own a preconditioner. It can take a
  /// PETScKrylovSolver and set the preconditioner type and
  /// parameters.

  class PETScPreconditioner : public PETScObject,
    public GenericPreconditioner, public Variable
  {
  public:

    /// Create a particular preconditioner object
    explicit PETScPreconditioner(std::string type = "default");

    /// Destructor
    virtual ~PETScPreconditioner();

    /// Set the precondtioner type and parameters
    virtual void set(PETScKrylovSolver& solver);

    /// Set the (near) null space of the preconditioner operator
    /// (matrix). This is required for certain preconditioner types,
    /// e.g. smoothed aggregation multigrid
    void set_nullspace(const VectorSpaceBasis& near_nullspace);

    /// Return the PETSc null space
    boost::shared_ptr<const MatNullSpace> near_nullspace() const
    { return petsc_near_nullspace; }

    /// Set the coordinates of the operator (matrix) rows and geometric
    /// dimension d. This is can be used by required for certain
    /// preconditioners, e.g. ML. The input for this function can be
    /// generated using GenericDofMap::tabulate_all_dofs.
    void set_coordinates(const std::vector<double>& x, std::size_t dim);

    // FIXME: Document
    void
      set_fieldsplit(PETScKrylovSolver& solver,
                     const std::vector<std::vector<dolfin::la_index> >& fields,
                     const std::vector<std::string>& split_names);

    /// Return informal string representation (pretty-print)
    std::string str(bool verbose) const;

    /// Rerturn a list of available preconditioners
    static std::vector<std::pair<std::string, std::string> > preconditioners();

    /// Default parameter values
    static Parameters default_parameters();

    friend class PETScSNESSolver;

  private:

    /// Named preconditioner
    std::string _type;

    // Available names preconditioners
    static const std::map<std::string, const PCType> _methods;

    // Available preconditioner descriptions
    static const std::vector<std::pair<std::string, std::string> >
      _methods_descr;

    // Near null space vectors
    std::vector<PETScVector> _near_nullspace;

    // PETSc null space. Would like this to be a scoped_ptr, but it
    // doesn't support custom deleters. Change to std::unique_ptr in
    // the future.
    boost::shared_ptr<MatNullSpace> petsc_near_nullspace;

    // Operator row coordinates
    std::vector<double> _coordinates;

    // Geometric dimension associates with coordinates
    std::size_t gdim;

  };

}

#endif

#endif