This file is indexed.

/usr/include/trilinos/Ifpack_IKLU.h is in libtrilinos-ifpack-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
395
396
397
398
/*@HEADER
// ***********************************************************************
//
//       Ifpack: Object-Oriented Algebraic Preconditioner Package
//                 Copyright (2002) 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 IFPACK_IKLU_H
#define IFPACK_IKLU_H

#include "Ifpack_ConfigDefs.h"
#include "Ifpack_CondestType.h"
#include "Ifpack_ScalingType.h"
#include "Ifpack_Preconditioner.h"
#include "Ifpack_IKLU_Utils.h"
#include "Epetra_Vector.h"
#include "Epetra_CrsMatrix.h"
#include "Epetra_Time.h"
#include "Teuchos_RefCountPtr.hpp"

class Epetra_RowMatrix;
class Epetra_SerialComm;
class Epetra_Comm;
class Epetra_Map;
class Epetra_MultiVector;

namespace Teuchos {
  class ParameterList;
}

//! Ifpack_IKLU: A class for constructing and using an incomplete LU factorization of a given Epetra_RowMatrix.

/*! The Ifpack_IKLU class computes a "Relaxed" IKLU factorization with level k fill
    of a given Epetra_RowMatrix.

    <P> Please refer to \ref ifp_ilu for a general description of the ILU algorithm.

    <P>The complete list of supported parameters is reported in page \ref ifp_params.

    \author Heidi Thornquist, Org. 1437

    \date Last modified on 28-Nov-06.
*/
class Ifpack_IKLU: public Ifpack_Preconditioner {

public:
  // @{ Constructors and Destructors
  //! Ifpack_IKLU constuctor with variable number of indices per row.
  Ifpack_IKLU(const Epetra_RowMatrix* A);

  //! Ifpack_IKLU Destructor
  virtual ~Ifpack_IKLU();

  // @}
  // @{ Construction methods
  //! Set parameters using a Teuchos::ParameterList object.
  /* This method is only available if the Teuchos package is enabled.
     This method recognizes five parameter names: level_fill, drop_tolerance,
     absolute_threshold, relative_threshold and overlap_mode. These names are
     case insensitive. For level_fill the ParameterEntry must have type int, the
     threshold entries must have type double and overlap_mode must have type
     Epetra_CombineMode.
  */
  int SetParameters(Teuchos::ParameterList& parameterlis);

  //! Initialize L and U with values from user matrix A.
  /*! Copies values from the user's matrix into the nonzero pattern of L and U.
    \param In
           A - User matrix to be factored.
    \warning The graph of A must be identical to the graph passed in to Ifpack_IlukGraph constructor.

   */
  int Initialize();

  //! Returns \c true if the preconditioner has been successfully initialized.
  bool IsInitialized() const
  {
    return(IsInitialized_);
  }

  //! Compute IC factor U using the specified graph, diagonal perturbation thresholds and relaxation parameters.
  /*! This function computes the RILU(k) factors L and U using the current:
    <ol>
    <li> Ifpack_IlukGraph specifying the structure of L and U.
    <li> Value for the RILU(k) relaxation parameter.
    <li> Value for the \e a \e priori diagonal threshold values.
    </ol>
    InitValues() must be called before the factorization can proceed.
   */
  int Compute();

  //! If factor is completed, this query returns true, otherwise it returns false.
  bool IsComputed() const {return(IsComputed_);};

  // Mathematical functions.

  //! Returns the result of a Ifpack_IKLU forward/back solve on a Epetra_MultiVector X in Y.
  /*!
    \param
    X - (In) A Epetra_MultiVector of dimension NumVectors to solve for.
    \param
    Y - (Out) A Epetra_MultiVector of dimension NumVectorscontaining result.

    \return Integer error code, set to 0 if successful.
  */
  int ApplyInverse(const Epetra_MultiVector& X, Epetra_MultiVector& Y) const;

  int Apply(const Epetra_MultiVector& X, Epetra_MultiVector& Y) const;

  //! Computed the estimated condition number and returns the value.
  double Condest(const Ifpack_CondestType CT = Ifpack_Cheap,
                 const int MaxIters = 1550,
                 const double Tol = 1e-9,
                 Epetra_RowMatrix* Matrix_in = 0);

  //! Returns the computed estimated condition number, or -1.0 if no computed.
  double Condest() const
  {
    return(Condest_);
  }

  //! If set true, transpose of this operator will be applied.
  /*! This flag allows the transpose of the given operator to be used implicitly.  Setting this flag
      affects only the Apply() and ApplyInverse() methods.  If the implementation of this interface
      does not support transpose use, this method should return a value of -1.

     \param
     UseTranspose_in - (In) If true, multiply by the transpose of operator, otherwise just use operator.

     \return Always returns 0.
  */
  int SetUseTranspose(bool UseTranspose_in) {UseTranspose_ = UseTranspose_in; return(0);};

  //! Returns 0.0 because this class cannot compute Inf-norm.
  double NormInf() const {return(0.0);};

  //! Returns false because this class cannot compute an Inf-norm.
  bool HasNormInf() const {return(false);};

  //! Returns the current UseTranspose setting.
  bool UseTranspose() const {return(UseTranspose_);};

  //! Returns the Epetra_Map object associated with the domain of this operator.
  const Epetra_Map & OperatorDomainMap() const {return(A_.OperatorDomainMap());};

  //! Returns the Epetra_Map object associated with the range of this operator.
  const Epetra_Map & OperatorRangeMap() const{return(A_.OperatorRangeMap());};

  //! Returns the Epetra_BlockMap object associated with the range of this matrix operator.
  const Epetra_Comm & Comm() const{return(Comm_);};

  //! Returns a reference to the matrix to be preconditioned.
  const Epetra_RowMatrix& Matrix() const
  {
    return(A_);
  }

  //! Returns a reference to the L factor.
  const Epetra_CrsMatrix & L() const {return(*L_);};

  //! Returns a reference to the U factor.
  const Epetra_CrsMatrix & U() const {return(*U_);};

  //! Returns the label of \c this object.
  const char* Label() const
  {
    return(Label_.c_str());
  }

  //! Sets the label for \c this object
  int SetLabel(const char* Label_in)
  {
    Label_ = Label_in;
    return(0);
  }

  //! Prints basic information on iostream. This function is used by operator<<.
  virtual std::ostream& Print(std::ostream& os) const;

  //! Returns the number of calls to Initialize().
  virtual int NumInitialize() const
  {
    return(NumInitialize_);
  }

  //! Returns the number of calls to Compute().
  virtual int NumCompute() const
  {
    return(NumCompute_);
  }

  //! Returns the number of calls to ApplyInverse().
  virtual int NumApplyInverse() const
  {
    return(NumApplyInverse_);
  }

  //! Returns the time spent in Initialize().
  virtual double InitializeTime() const
  {
    return(InitializeTime_);
  }

  //! Returns the time spent in Compute().
  virtual double ComputeTime() const
  {
    return(ComputeTime_);
  }

  //! Returns the time spent in ApplyInverse().
  virtual double ApplyInverseTime() const
  {
    return(ApplyInverseTime_);
  }

  //! Returns the number of flops in the initialization phase.
  virtual double InitializeFlops() const
  {
    return(0.0);
  }

  virtual double ComputeFlops() const
  {
    return(ComputeFlops_);
  }

  virtual double ApplyInverseFlops() const
  {
    return(ApplyInverseFlops_);
  }

  inline double LevelOfFill() const {
    return(LevelOfFill_);
  }

  //! Set relative threshold value
  inline double RelaxValue() const {
    return(Relax_);
  }

  //! Get absolute threshold value
  inline double AbsoluteThreshold() const
  {
    return(Athresh_);
  }

  //! Get relative threshold value
  inline double RelativeThreshold() const
  {
    return(Rthresh_);
  }

  //! Gets the dropping tolerance
  inline double DropTolerance() const
  {
    return(DropTolerance_);
  }

  //! Returns the number of nonzero entries in the global graph.
#ifndef EPETRA_NO_32BIT_GLOBAL_INDICES
  int NumGlobalNonzeros() const {
    // FIXME: diagonal of L_ should not be stored
    return(L().NumGlobalNonzeros() + U().NumGlobalNonzeros() - L().NumGlobalRows());
  }
#endif
  long long NumGlobalNonzeros64() const {
    // FIXME: diagonal of L_ should not be stored
    return(L().NumGlobalNonzeros64() + U().NumGlobalNonzeros64() - L().NumGlobalRows64());
  }

  //! Returns the number of nonzero entries in the local graph.
  int NumMyNonzeros() const {
    return(L().NumMyNonzeros() + U().NumMyNonzeros());
  }

private:

  // @}
  // @{ Internal methods

  //! Copy constructor (should never be used)
  Ifpack_IKLU(const Ifpack_IKLU& RHS) :
    A_(RHS.Matrix()),
    Comm_(RHS.Comm()),
    Time_(Comm())
  {};

  //! operator= (should never be used)
  Ifpack_IKLU& operator=(const Ifpack_IKLU& RHS)
  {
    return(*this);
  }

  //! Releases all allocated memory.
  void Destroy();

  // @}
  // @{ Internal data

  //! reference to the matrix to be preconditioned.
  const Epetra_RowMatrix& A_;
  //! Reference to the communicator object.
  const Epetra_Comm& Comm_;
  //! L factor
  Teuchos::RefCountPtr<Epetra_CrsMatrix> L_;
  //! U factor
  Teuchos::RefCountPtr<Epetra_CrsMatrix> U_;
  //! Condition number estimate.
  double Condest_;
  //! relaxation value
  double Relax_;
  //! Absolute threshold
  double Athresh_;
  //! Relative threshold
  double Rthresh_;
  //! Level-of-fill
  double LevelOfFill_;
  //! Discards all elements below this tolerance
  double DropTolerance_;
  //! Label for \c this object
  std::string Label_;
  //! \c true if \c this object has been initialized
  bool IsInitialized_;
  //! \c true if \c this object has been computed
  bool IsComputed_;
  //! \c true if transpose has to be used.
  bool UseTranspose_;
  //! Number of local rows.
  int NumMyRows_;
  //! Number of local nonzeros
  int NumMyNonzeros_;
  //! Contains the number of successful calls to Initialize().
  int NumInitialize_;
  //! Contains the number of successful call to Compute().
  int NumCompute_;
  //! Contains the number of successful call to ApplyInverse().
  mutable int NumApplyInverse_;
  //! Contains the time for all successful calls to Initialize().
  double InitializeTime_;
  //! Contains the time for all successful calls to Compute().
  double ComputeTime_;
  //! Contains the time for all successful calls to ApplyInverse().
  mutable double ApplyInverseTime_;
  //! Contains the number of flops for Compute().
  double ComputeFlops_;
  //! Contain sthe number of flops for ApplyInverse().
  mutable double ApplyInverseFlops_;
  //! Used for timing purposed
  mutable Epetra_Time Time_;
  //! Global number of nonzeros in L and U factors
  long long GlobalNonzeros_;
  Teuchos::RefCountPtr<Epetra_SerialComm> SerialComm_;
  Teuchos::RefCountPtr<Epetra_Map> SerialMap_;

  //! Containers for the matrix storage and permutation
  csr* csrA_;
  css* cssS_;
  //! Container for the L and U factor
  csrn* csrnN_;

}; // Ifpack_IKLU

#endif /* IFPACK_IKLU_H */