This file is indexed.

/usr/include/trilinos/Ifpack2_OverlappingRowMatrix_decl.hpp is in libtrilinos-ifpack2-dev 12.10.1-3.

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
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
/*@HEADER
// ***********************************************************************
//
//       Ifpack2: Tempated Object-Oriented Algebraic Preconditioner Package
//                 Copyright (2009) Sandia Corporation
//
// Under terms of Contract DE-AC04-94AL85000, there is a non-exclusive
// license for use of this work by or on behalf of the U.S. Government.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are
// met:
//
// 1. Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
//
// 2. 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.
//
// 3. Neither the name of the Corporation nor the names of the
// contributors may be used to endorse or promote products derived from
// this software without specific prior written permission.
//
// THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "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 SANDIA CORPORATION OR THE
// 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.
//
// Questions? Contact Michael A. Heroux (maherou@sandia.gov)
//
// ***********************************************************************
//@HEADER
*/

#ifndef IFPACK2_OVERLAPPINGROWMATRIX_DECL_HPP
#define IFPACK2_OVERLAPPINGROWMATRIX_DECL_HPP

#include "Ifpack2_ConfigDefs.hpp"
#include "Tpetra_RowMatrix.hpp"
#include "Tpetra_CrsMatrix_decl.hpp" // only need the declaration here
#include "Tpetra_Import.hpp"
#include "Tpetra_Map.hpp"
#include <type_traits>

namespace Ifpack2 {

/// \class OverlappingRowMatrix
/// \brief Sparse matrix (Tpetra::RowMatrix subclass) with ghost rows.
/// \tparam MatrixType Tpetra::RowMatrix specialization.
template<class MatrixType>
class OverlappingRowMatrix :
    virtual public Tpetra::RowMatrix<typename MatrixType::scalar_type,
                                     typename MatrixType::local_ordinal_type,
                                     typename MatrixType::global_ordinal_type,
                                     typename MatrixType::node_type> {
public:
  //! \name Typedefs
  //@{
  typedef typename MatrixType::scalar_type scalar_type;
  typedef typename MatrixType::local_ordinal_type local_ordinal_type;
  typedef typename MatrixType::global_ordinal_type global_ordinal_type;
  typedef typename MatrixType::node_type node_type;
  typedef typename Teuchos::ScalarTraits<scalar_type>::magnitudeType magnitude_type;
  typedef Tpetra::RowMatrix<scalar_type, local_ordinal_type,
                            global_ordinal_type, node_type> row_matrix_type;

  static_assert(std::is_same<MatrixType, row_matrix_type>::value, "Ifpack2::OverlappingRowMatrix: The template parameter MatrixType must be a Tpetra::RowMatrix specialization.  Please don't use Tpetra::CrsMatrix (a subclass of Tpetra::RowMatrix) here anymore.  The constructor can take either a RowMatrix or a CrsMatrix just fine.");

  typedef typename row_matrix_type::mag_type mag_type;

  //@}
  //! \name Constructors and destructor
  //@{

  /// Standard constructor.
  ///
  /// \param A [in] The input matrix.  Currently this class requires
  ///   that A be a Tpetra::CrsMatrix instance with the same first
  ///   four template parameters as MatrixType, and with a default
  ///   fifth template parameter.  Furthermore, A must have a
  ///   nonoverlapping row Map and must be distributed over more than
  ///   one MPI process.
  ///
  /// \param overlapLevel [in] The number of levels of overlap.
  OverlappingRowMatrix (const Teuchos::RCP<const row_matrix_type>& A,
                        const int overlapLevel);

  //! Destructor
  ~OverlappingRowMatrix ();

  //@}
  //! @name Matrix query methods
  //@{

  //! The communicator over which the matrix is distributed.
  virtual Teuchos::RCP<const Teuchos::Comm<int> > getComm() const;

  //! The matrix's Node instance.
  virtual Teuchos::RCP<node_type> getNode() const;

  //! The Map that describes the distribution of rows over processes.
  virtual Teuchos::RCP<const Tpetra::Map<local_ordinal_type, global_ordinal_type, node_type> >
  getRowMap () const;

  //! The Map that describes the distribution of columns over processes.
  virtual Teuchos::RCP<const Tpetra::Map<local_ordinal_type, global_ordinal_type, node_type> >
  getColMap () const;

  /// \brief The Map that describes the domain of this matrix.
  ///
  /// The domain is the distribution of valid input vectors of apply().
  virtual Teuchos::RCP<const Tpetra::Map<local_ordinal_type, global_ordinal_type, node_type> >
  getDomainMap () const;

  /// \brief The Map that describes the range of this matrix.
  ///
  /// The domain is the distribution of valid output vectors of apply().
  virtual Teuchos::RCP<const Tpetra::Map<local_ordinal_type, global_ordinal_type, node_type> >
  getRangeMap () const;

  //! This matrix's graph.
  virtual Teuchos::RCP<const Tpetra::RowGraph<local_ordinal_type, global_ordinal_type, node_type> >
  getGraph () const;

  //! The global number of rows in this matrix.
  virtual global_size_t getGlobalNumRows () const;

  //! The global number of columns in this matrix.
  virtual global_size_t getGlobalNumCols () const;

  //! The number of rows owned by the calling process.
  virtual size_t getNodeNumRows () const;

  /// \brief The number of columns owned by the calling process.
  ///
  /// This is the number of columns needed to apply the forward
  /// operator on the calling process, that is, the number of elements
  /// listed in the column Map on the calling process.
  virtual size_t getNodeNumCols () const;

  //! The index base for global indices for this matrix.
  virtual global_ordinal_type getIndexBase () const;

  //! The global number of entries in this matrix.
  virtual global_size_t getGlobalNumEntries () const;

  //! The number of entries in this matrix owned by the calling process.
  virtual size_t getNodeNumEntries () const;

  /// \brief The number of entries in the given global row that are
  ///   owned by the calling process.
  ///
  /// \param globalRow [in] Global index of the row.
  ///
  /// \return Teuchos::OrdinalTraits<size_t>::invalid() if the
  ///   specified row (either in the input matrix or in the overlap
  ///   matrix) is not owned by the calling process, else the number
  ///   of entries in that row that are owned by the calling process.
  virtual size_t getNumEntriesInGlobalRow (global_ordinal_type globalRow) const;

  /// \brief The number of entries in the given local row that are
  ///   owned by the calling process.
  ///
  /// \param globalRow [in] Local index of the row.
  ///
  /// \return Teuchos::OrdinalTraits<size_t>::invalid() if the
  ///   specified row (either in the input matrix or in the overlap
  ///   matrix) is not owned by the calling process, else the number
  ///   of entries in that row that are owned by the calling process.
  virtual size_t getNumEntriesInLocalRow (local_ordinal_type localRow) const;

  //! The global number of diagonal entries.
  virtual global_size_t getGlobalNumDiags () const;

  //! The number of diagonal entries owned by the calling process.
  virtual size_t getNodeNumDiags () const;

  //! The maximum number of entries in any row on any process.
  virtual size_t getGlobalMaxNumRowEntries () const;

  //! The maximum number of entries in any row on the calling process.
  virtual size_t getNodeMaxNumRowEntries() const;

  //! Whether this matrix has a column Map.
  virtual bool hasColMap() const;

  //! Whether this matrix is lower triangular.
  virtual bool isLowerTriangular() const;

  //! Whether this matrix is upper triangular.
  virtual bool isUpperTriangular() const;

  //! Whether this matrix is locally indexed.
  virtual bool isLocallyIndexed () const;

  //! Whether this matrix is globally indexed.
  virtual bool isGloballyIndexed () const;

  //! \c true if fillComplete() has been called, else \c false.
  virtual bool isFillComplete() const;

  //! \c true if row views are supported, else \c false.
  virtual bool supportsRowViews() const;

  //@}
  //! @name Extraction methods
  //@{

  //! Extract a list of entries in a specified global row of this matrix. Put into pre-allocated storage.
  /*!
    \param LocalRow - (In) Global row number for which indices are desired.
    \param Indices - (Out) Global column indices corresponding to values.
    \param Values - (Out) Matrix values.
    \param NumEntries - (Out) Number of indices.

    Note: A std::runtime_error exception is thrown if either \c Indices or \c Values is not large enough to hold the data associated
    with row \c GlobalRow. If \c GlobalRow does not belong to this node, then \c Indices and \c Values are unchanged and \c NumIndices is
    returned as Teuchos::OrdinalTraits<size_t>::invalid().
  */
  virtual void
  getGlobalRowCopy (global_ordinal_type GlobalRow,
                    const Teuchos::ArrayView<global_ordinal_type> &Indices,
                    const Teuchos::ArrayView<scalar_type> &Values,
                    size_t &NumEntries) const;

  //! Extract a list of entries in a specified local row of the graph. Put into storage allocated by calling routine.
  /*!
    \param LocalRow - (In) Local row number for which indices are desired.
    \param Indices - (Out) Local column indices corresponding to values.
    \param Values - (Out) Matrix values.
    \param NumIndices - (Out) Number of indices.

    Note: A std::runtime_error exception is thrown if either \c Indices or \c Values is not large enough to hold the data associated
    with row \c LocalRow. If \c LocalRow is not valid for this node, then \c Indices and \c Values are unchanged and \c NumIndices is
    returned as Teuchos::OrdinalTraits<size_t>::invalid().
  */
  virtual void
  getLocalRowCopy (local_ordinal_type LocalRow,
                   const Teuchos::ArrayView<local_ordinal_type> &Indices,
                   const Teuchos::ArrayView<scalar_type> &Values,
                   size_t &NumEntries) const;

  //! Extract a const, non-persisting view of global indices in a specified row of the matrix.
  /*!
    \param GlobalRow - (In) Global row number for which indices are desired.
    \param Indices   - (Out) Global column indices corresponding to values.
    \param Values    - (Out) Row values
    \pre <tt>isLocallyIndexed() == false</tt>
    \post <tt>indices.size() == getNumEntriesInGlobalRow(GlobalRow)</tt>

    Note: If \c GlobalRow does not belong to this node, then \c indices is set to null.
  */
  virtual void
  getGlobalRowView (global_ordinal_type GlobalRow,
                    Teuchos::ArrayView<const global_ordinal_type> &indices,
                    Teuchos::ArrayView<const scalar_type> &values) const;

  //! Extract a const, non-persisting view of local indices in a specified row of the matrix.
  /*!
    \param LocalRow - (In) Local row number for which indices are desired.
    \param Indices  - (Out) Global column indices corresponding to values.
    \param Values   - (Out) Row values
    \pre <tt>isGloballyIndexed() == false</tt>
    \post <tt>indices.size() == getNumEntriesInLocalRow(LocalRow)</tt>

    Note: If \c LocalRow does not belong to this node, then \c indices is set to null.
  */
  virtual void
  getLocalRowView (local_ordinal_type LocalRow,
                   Teuchos::ArrayView<const local_ordinal_type> &indices,
                   Teuchos::ArrayView<const scalar_type> &values) const;

  //! \brief Get a copy of the diagonal entries owned by this node, with local row indices.
  /*! Returns a distributed Vector object partitioned according to this matrix's row map, containing the
    the zero and non-zero diagonals owned by this node. */
  virtual
  void getLocalDiagCopy (Tpetra::Vector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &diag) const;

  //@}
  //! \name Mathematical methods
  //@{

  /**
   * \brief Scales the RowMatrix on the left with the Vector x.
   *
   * This matrix will be scaled such that A(i,j) = x(i)*A(i,j)
   * where i denoes the global row number of A and
   * j denotes the global column number of A.
   *
   * \param x A vector to left scale this matrix.
   */
  virtual void
  leftScale (const Tpetra::Vector<scalar_type, local_ordinal_type, global_ordinal_type, node_type>& x);

  /**
   * \brief Scales the RowMatrix on the right with the Vector x.
   *
   * This matrix will be scaled such that A(i,j) = x(j)*A(i,j)
   * where i denoes the global row number of A and
   * j denotes the global column number of A.
   *
   * \param x A vector to right scale this matrix.
   */
  virtual void
  rightScale (const Tpetra::Vector<scalar_type, local_ordinal_type, global_ordinal_type, node_type>& x);

  //! Returns the Frobenius norm of the matrix.
  /** Computes and returns the Frobenius norm of the matrix, defined as:
      \f$ \|A\|_F = \sqrt{\sum_{i,j} \|\a_{ij}\|^2} \f$
  */
  virtual mag_type
  getFrobeniusNorm () const;

  //! \brief Computes the operator-multivector application.
  /*! Loosely, performs \f$Y = \alpha \cdot A^{\textrm{mode}} \cdot X + \beta \cdot Y\f$. However, the details of operation
    vary according to the values of \c alpha and \c beta. Specifically
    - if <tt>beta == 0</tt>, apply() <b>must</b> overwrite \c Y, so that any values in \c Y (including NaNs) are ignored.
    - if <tt>alpha == 0</tt>, apply() <b>may</b> short-circuit the operator, so that any values in \c X (including NaNs) are ignored.

    This is analagous to the *Multiply* function in Ifpack, not the *Apply*
  */
  virtual void
  apply (const Tpetra::MultiVector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &X,
         Tpetra::MultiVector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &Y,
         Teuchos::ETransp mode = Teuchos::NO_TRANS,
         scalar_type alpha = Teuchos::ScalarTraits<scalar_type>::one(),
         scalar_type beta = Teuchos::ScalarTraits<scalar_type>::zero()) const;

  //! Whether this operator's apply() method can apply the adjoint (transpose).
  virtual bool hasTransposeApply() const;

  virtual void
  importMultiVector (const Tpetra::MultiVector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &X,
                     Tpetra::MultiVector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &OvX,
                     Tpetra::CombineMode CM = Tpetra::INSERT);

  virtual void
  exportMultiVector (const Tpetra::MultiVector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &OvX,
                     Tpetra::MultiVector<scalar_type,local_ordinal_type,global_ordinal_type,node_type> &X,
                     Tpetra::CombineMode CM = Tpetra::ADD);
  //@}

  std::string description() const;

  void describe(Teuchos::FancyOStream &out, const Teuchos::EVerbosityLevel verbLevel) const;

  virtual Teuchos::RCP<const row_matrix_type> getUnderlyingMatrix() const;

private:
  typedef Tpetra::Map<local_ordinal_type, global_ordinal_type, node_type> map_type;
  typedef Tpetra::Import<local_ordinal_type, global_ordinal_type, node_type> import_type;
  typedef Tpetra::Export<local_ordinal_type, global_ordinal_type, node_type> export_type;
  typedef Tpetra::RowGraph<local_ordinal_type, global_ordinal_type, node_type> row_graph_type;
  typedef Tpetra::CrsMatrix<scalar_type, local_ordinal_type, global_ordinal_type, node_type> crs_matrix_type;

  //! The input matrix to the constructor.
  Teuchos::RCP<const row_matrix_type> A_;

  Tpetra::global_size_t NumGlobalRows_;
  Tpetra::global_size_t NumGlobalNonzeros_;
  size_t MaxNumEntries_;
  int OverlapLevel_;

  // Wrapper matrix objects
  Teuchos::RCP<const map_type> RowMap_;
  Teuchos::RCP<const map_type> ColMap_;
  Teuchos::RCP<const import_type> Importer_;

  //! The matrix containing only the overlap rows.
  Teuchos::RCP<row_matrix_type> ExtMatrix_;
  Teuchos::RCP<map_type>        ExtMap_;
  Teuchos::RCP<import_type>     ExtImporter_;

  //! Graph of the matrix (as returned by getGraph()).
  Teuchos::RCP<const row_graph_type> graph_;

  //! Used in apply(), to avoid allocation each time.
  mutable Teuchos::Array<local_ordinal_type> Indices_;
  //! Used in apply(), to avoid allocation each time.
  mutable Teuchos::Array<scalar_type> Values_;

}; // class OverlappingRowMatrix

} // namespace Ifpack2

#endif // IFPACK2_OVERLAPPINGROWMATRIX_DECL_HPP