This file is indexed.

/usr/include/trilinos/Zoltan2_MatchingProblem.hpp is in libtrilinos-zoltan2-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
#if 0
// @HEADER
//
// ***********************************************************************
//
//   Zoltan2: A package of combinatorial algorithms for scientific computing
//                  Copyright 2012 Sandia Corporation
//
// Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation,
// the U.S. Government retains certain rights in this software.
//
// 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 Karen Devine      (kddevin@sandia.gov)
//                    Erik Boman        (egboman@sandia.gov)
//                    Siva Rajamanickam (srajama@sandia.gov)
//
// ***********************************************************************
//
// @HEADER

/*! \file Zoltan2_MatchingProblem.hpp
    \brief Defines the MatchingProblem class.
*/

#ifndef _ZOLTAN2_MATCHINGPROBLEM_HPP_
#define _ZOLTAN2_MATCHINGPROBLEM_HPP_

#include <Zoltan2_Standards.hpp>

#include <Zoltan2_Problem.hpp>
#include <Zoltan2_MatchingAlgorithms.hpp>
#include <Zoltan2_MatchingSolution.hpp>

#include <Zoltan2_GraphModel.hpp>
#include <string>

#include <bitset>

using Teuchos::rcp_dynamic_cast;

namespace Zoltan2{

////////////////////////////////////////////////////////////////////////

/*! \brief MatchingProblem sets up coloring problems for the user.
 *
 *  The MatchingProblem is the core of the Zoltan2 coloring API.
 *  Based on the the user's input and parameters, the MatchingProblem
 *  sets up a computational Model, and a Solution object.  When the user
 *  calls the solve() method, the MatchingProblem runs the algorithm,
 *  after which the Solution object may be obtained by the user.
 *  \todo include pointers to examples
 *
 *  The template parameter is the InputAdapter containing the data that
 *  is to be partitioned.
 *
 *  \todo - Should Problems and Solution have interfaces for returning
 *          views and for returning RCPs?  Or just one?  At a minimum, 
 *          we should have the word "View" in function names that return views.
 *
 *  \todo - Currently, only serial and shared-memory coloring are supported.
 */

template<typename Adapter>
class MatchingProblem : public Problem<Adapter>
{
public:

  typedef typename Adapter::scalar_t scalar_t;
  typedef typename Adapter::gno_t gno_t;
  typedef typename Adapter::lno_t lno_t;
  typedef typename Adapter::user_t user_t;
  typedef typename Adapter::base_adapter_t base_adapter_t;

#ifdef HAVE_ZOLTAN2_MPI
   typedef Teuchos::OpaqueWrapper<MPI_Comm> mpiWrapper_t;
#endif

  /*! \brief Destructor
   */
  virtual ~MatchingProblem() {};


#ifdef HAVE_ZOLTAN2_MPI
  /*! \brief Constructor that takes an MPI communicator
   */
  MatchingProblem(Adapter *A, ParameterList *p, MPI_Comm comm) 
                      : Problem<Adapter>(A, p, comm) 
  {
    HELLO;
    createMatchingProblem();
  };
#endif

  /*! \brief Constructor that uses a default communicator
   */
  MatchingProblem(Adapter *A, ParameterList *p) : Problem<Adapter>(A, p) 
  {
    HELLO;
    createMatchingProblem();
  };

  //!  \brief Direct the problem to create a solution.
  //
  //    \param updateInputData   If true this indicates that either
  //          this is the first attempt at solution, or that we
  //          are computing a new solution and the input data has
  //          changed since the previous solution was computed.
  //          If false, this indicates that we are computing a
  //          new solution using the same input data was used for
  //          the previous solution, even though the parameters
  //          may have been changed.
  //
  //  For the sake of performance, we ask the caller to set \c updateInputData
  //  to false if he/she is computing a new solution using the same input data,
  //  but different problem parameters, than that which was used to compute
  //  the most recent solution.
  
  void solve(bool updateInputData=true); 

  //!  \brief Get the solution to the problem.
  //
  //   \return  a reference to the solution to the most recent solve().

  MatchingSolution<Adapter> *getSolution() {
    // Get the raw ptr from the rcp
    return solution_.getRawPtr();
  };

private:
  void createMatchingProblem();

  RCP<MatchingSolution<Adapter> > solution_;

};


////////////////////////////////////////////////////////////////////////
template <typename Adapter>
void MatchingProblem<Adapter>::solve(bool newData)
{
  HELLO;

  size_t nVtx = this->baseModel_->getLocalNumObjects();

  try
  {
      this->solution_ = rcp(new MatchingSolution<Adapter>(nVtx));
  }
  Z2_FORWARD_EXCEPTIONS;

  // Determine which algorithm to use based on defaults and parameters.
  // Need some exception handling here, too.

  std::string method = this->params_->template get<std::string>("color_method", "SerialGreedy");

  try
  {
  // TODO: Ignore case
  if (method.compare("SerialGreedy") == 0)
  {
      AlgSerialGreedy<Adapter> alg(this->graphModel_, this->params_,
                                   this->env_, this->comm_);
      alg.color(this->solution_);
  }
#if 0 // TODO later
  else if (method.compare("speculative") == 0) // Gebremedhin-Manne
  {
      AlgGM<base_adapter_t> alg(this->graphModel_, this->comm_);
      alg.color(this->solution_, this->params_);
  }
#endif
  }
  Z2_FORWARD_EXCEPTIONS;

}

////////////////////////////////////////////////////////////////////////
//template <typename Adapter>
//void MatchingProblem<Adapter>::redistribute()
//{
//  HELLO;
//}

////////////////////////////////////////////////////////////////////////
//! createMatchingProblem 
//  Method with common functionality for creating a MatchingProblem.
//  Individual constructors do appropriate conversions of input, etc.
//  This method does everything that all constructors must do.

template <typename Adapter>
void MatchingProblem<Adapter>::createMatchingProblem()
{
  HELLO;
  using Teuchos::ParameterList;

//  cout << __func__zoltan2__ << " input adapter type " 
//       << this->inputAdapter_->inputAdapterType() << " " 
//       << this->inputAdapter_->inputAdapterName() << endl;

  // Create a copy of the user's communicator.

  // Only graph model supported.
  // TODO: Allow hypergraph later?

  ModelType modelType = GraphModelType; 

  // Select Model based on parameters and InputAdapter type

  std::bitset<NUM_MODEL_FLAGS> graphFlags;
  std::bitset<NUM_MODEL_FLAGS> idFlags;

  switch (modelType) {

  case GraphModelType:
    graphFlags.set(REMOVE_SELF_EDGES);
    graphFlags.set(BUILD_LOCAL_GRAPH);
    this->graphModel_ = rcp(new GraphModel<base_adapter_t>(
      this->baseInputAdapter_, this->envConst_, this->comm_, graphFlags));

    this->baseModel_ = rcp_implicit_cast<const Model<base_adapter_t> >(
      this->graphModel_);

    break;


  case IdentifierModelType:
  case HypergraphModelType:
  case CoordinateModelType:
    cout << __func__zoltan2__ << " Model type " << modelType << " not yet supported." 
         << endl;
    break;

  default:
    cout << __func__zoltan2__ << " Invalid model" << modelType << endl;
    break;
  }
}
} //namespace Zoltan2

#endif
#endif