This file is indexed.

/usr/include/trilinos/MueLu_HierarchyManager.hpp is in libtrilinos-muelu-dev 12.4.2-2.

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
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
// @HEADER
//
// ***********************************************************************
//
//        MueLu: A package for multigrid based preconditioning
//                  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
//                    Jonathan Hu       (jhu@sandia.gov)
//                    Andrey Prokopenko (aprokop@sandia.gov)
//                    Ray Tuminaro      (rstumin@sandia.gov)
//
// ***********************************************************************
//
// @HEADER
#ifndef MUELU_HIERARCHYMANAGER_DECL_HPP
#define MUELU_HIERARCHYMANAGER_DECL_HPP

#include <string>
#include <map>

#include <Teuchos_Array.hpp>

#include <Xpetra_Operator.hpp>

#include "MueLu_ConfigDefs.hpp"

#include "MueLu_Exceptions.hpp"
#include "MueLu_Hierarchy.hpp"
#include "MueLu_HierarchyFactory.hpp"
#include "MueLu_Level.hpp"
#include "MueLu_MasterList.hpp"
#include "MueLu_Utilities.hpp"

namespace MueLu {

  // This class stores the configuration of a Hierarchy.
  // The class also provides an algorithm to build a Hierarchy from the configuration.
  //
  // See also: FactoryManager
  //
  template <class Scalar = double, class LocalOrdinal = int, class GlobalOrdinal = LocalOrdinal, class Node = KokkosClassic::DefaultNode::DefaultNodeType>
  class HierarchyManager : public HierarchyFactory<Scalar, LocalOrdinal, GlobalOrdinal, Node> {
#undef MUELU_HIERARCHYMANAGER_SHORT
#include "MueLu_UseShortNames.hpp"
    typedef std::pair<std::string, const FactoryBase*> keep_pair;

  public:

    //!
    HierarchyManager(int numDesiredLevel = MasterList::getDefault<int>("max levels")) :
        numDesiredLevel_        (numDesiredLevel),
        maxCoarseSize_          (MasterList::getDefault<int>("coarse: max size")),
        verbosity_              (Medium),
        doPRrebalance_          (MasterList::getDefault<bool>("repartition: rebalance P and R")),
        implicitTranspose_      (MasterList::getDefault<bool>("transpose: use implicit")),
        graphOutputLevel_(-1) { }

    //!
    virtual ~HierarchyManager() { }

    //!
    void AddFactoryManager(int startLevel, int numDesiredLevel, RCP<FactoryManagerBase> manager) {
      const int lastLevel = startLevel + numDesiredLevel - 1;
      if (levelManagers_.size() < lastLevel + 1)
        levelManagers_.resize(lastLevel + 1);

      for (int iLevel = startLevel; iLevel <= lastLevel; iLevel++)
        levelManagers_[iLevel] = manager;
    }

    //!
    RCP<FactoryManagerBase> GetFactoryManager(int levelID) const {
      // NOTE: last levelManager is used for all the remaining levels
      return (levelID >= levelManagers_.size() ? levelManagers_[levelManagers_.size()-1] : levelManagers_[levelID]);
    }

    //! returns number of factory managers stored in levelManagers_ vector.
    size_t getNumFactoryManagers() const {
      return levelManagers_.size();
    }

    //!
    void CheckConfig() {
      for (int i = 0; i < levelManagers_.size(); i++)
        TEUCHOS_TEST_FOR_EXCEPTION(levelManagers_[i] == Teuchos::null, Exceptions::RuntimeError, "MueLu:HierarchyConfig::CheckConfig(): Undefined configuration for level:");
    }

    //@{

    virtual RCP<Hierarchy> CreateHierarchy() const {
      return rcp(new Hierarchy());
    }

    //! Setup Hierarchy object
    virtual void SetupHierarchy(Hierarchy& H) const {
      TEUCHOS_TEST_FOR_EXCEPTION(!H.GetLevel(0)->IsAvailable("A"), Exceptions::RuntimeError, "No fine level operator");

#ifdef HAVE_MUELU_DEBUG
      // Reset factories' data used for debugging
      for (int i = 0; i < levelManagers_.size(); i++)
        levelManagers_[i]->ResetDebugData();

#endif

      // Setup Matrix
      // TODO: I should certainly undo this somewhere...
      RCP<Level>    l0 = H.GetLevel(0);
      RCP<Operator> Op = l0->Get<RCP<Operator> >("A");

      Xpetra::UnderlyingLib lib = Op->getDomainMap()->lib();
      H.setlib(lib);

      SetupOperator(*Op);
      SetupExtra(H);

      // Setup Hierarchy
      H.SetMaxCoarseSize(maxCoarseSize_);
      VerboseObject::SetDefaultVerbLevel(verbosity_);
      if (graphOutputLevel_ >= 0)
        H.EnableGraphDumping("dep_graph.dot", graphOutputLevel_);

      H.SetPRrebalance(doPRrebalance_);
      H.SetImplicitTranspose(implicitTranspose_);

      H.Clear();

      // There are few issues with using Keep in the interpreter:
      //   1. Hierarchy::Keep interface takes a name and a factory. If
      //      factories are different on different levels, the AddNewLevel() call
      //      in Hierarchy does not work properly, as it assume that factories are
      //      the same.
      //   2. FactoryManager does not have a Keep option, only Hierarchy and
      //      Level have it
      //   3. Interpreter constructs factory managers, but not levels. So we
      //      cannot set up Keep flags there.
      //
      // The solution implemented here does the following:
      //   1. Construct hierarchy with dummy levels. This avoids
      //      Hierarchy::AddNewLevel() calls which will propagate wrong
      //      inheritance.
      //   2. Interpreter constructs keep_ array with names and factories for
      //      that level
      //   3. For each level, we call Keep(name, factory) for each keep_
      for (int i = 0; i < numDesiredLevel_; i++) {
        std::map<int, std::vector<keep_pair> >::const_iterator it = keep_.find(i);
        if (it != keep_.end()) {
          RCP<Level> l = H.GetLevel(i);
          const std::vector<keep_pair>& keeps = it->second;
          for (size_t j = 0; j < keeps.size(); j++)
            l->Keep(keeps[j].first, keeps[j].second);
        }
        if (i < numDesiredLevel_-1) {
          RCP<Level> newLevel = rcp(new Level());
          H.AddLevel(newLevel);
        }
      }

      int  levelID     = 0;
      int  lastLevelID = numDesiredLevel_ - 1;
      bool isLastLevel = false;

      while (!isLastLevel) {
        bool r = H.Setup(levelID,
                         LvlMngr(levelID-1, lastLevelID),
                         LvlMngr(levelID,   lastLevelID),
                         LvlMngr(levelID+1, lastLevelID));

        isLastLevel = r || (levelID == lastLevelID);
        levelID++;
      }

      RCP<Teuchos::FancyOStream> fos = this->getOStream();
      fos->setOutputToRootOnly(0);
      H.describe(*fos, verbosity_);

      // When we reuse hierarchy, it is necessary that we don't
      // change the number of levels. We also cannot make requests
      // for coarser levels, because we don't construct all the
      // data on previous levels. For instance, let's say our first
      // run constructed three levels. If we try to do requests during
      // next setup for the fourth level, it would need Aggregates
      // which we didn't construct for level 3 because we reused P.
      // To fix this situation, we change the number of desired levels
      // here.
      numDesiredLevel_ = levelID;

      WriteData<Matrix>(H, matricesToPrint_,     "A");
      WriteData<Matrix>(H, prolongatorsToPrint_, "P");
      WriteData<Matrix>(H, restrictorsToPrint_,  "R");

    } //SetupHierarchy

    //@}

    typedef std::map<std::string, RCP<const FactoryBase> > FactoryMap;

  protected: //TODO: access function

    //! Setup Matrix object
    virtual void SetupOperator(Operator& Op) const { }

    //! Setup extra data
    // TODO: merge with SetupMatrix ?
    virtual void SetupExtra(Hierarchy& H) const { }

    // TODO this was private
    // Used in SetupHierarchy() to access levelManagers_
    // Inputs i=-1 and i=size() are allowed to simplify calls to hierarchy->Setup()
    Teuchos::RCP<FactoryManagerBase> LvlMngr(int levelID, int lastLevelID) const {
      // NOTE: the order of 'if' statements is important
      if (levelID == -1)                    // levelID = -1 corresponds to the finest level
        return Teuchos::null;

      if (levelID == lastLevelID+1)         // levelID = 'lastLevelID+1' corresponds to the last level (i.e., no nextLevel)
        return Teuchos::null;

      if (levelManagers_.size() == 0) {     // default factory manager.
        // The default manager is shared across levels, initialized only if needed and deleted with the HierarchyManager
        static RCP<FactoryManagerBase> defaultMngr = rcp(new FactoryManager());
        return defaultMngr;
      }

      return GetFactoryManager(levelID);
    }

    // Hierarchy parameters
    mutable int           numDesiredLevel_;
    Xpetra::global_size_t maxCoarseSize_;
    MsgType               verbosity_;
    bool                  doPRrebalance_;
    bool                  implicitTranspose_;
    int                   graphOutputLevel_;
    Teuchos::Array<int>   matricesToPrint_;
    Teuchos::Array<int>   prolongatorsToPrint_;
    Teuchos::Array<int>   restrictorsToPrint_;

    std::map<int, std::vector<keep_pair> > keep_;

  private:

    template<class T>
    void WriteData(Hierarchy& H, const Teuchos::Array<int>& data, const std::string& name) const {
      for (int i = 0; i < data.size(); ++i) {
        std::string fileName = name + "_" + Teuchos::toString(data[i]) + ".m";

        if (data[i] < H.GetNumLevels()) {
          RCP<Level> L = H.GetLevel(data[i]);

          if (L->IsAvailable(name)) {
            RCP<T> M = L->template Get< RCP<T> >(name);
            if (!M.is_null())
              Utils::Write(fileName,* M);
          }
        }
      }
    }

    // Levels
    Array<RCP<FactoryManagerBase> > levelManagers_;        // one FactoryManager per level (the last levelManager is used for all the remaining levels)

  }; // class HierarchyManager

} // namespace MueLu

#define MUELU_HIERARCHYMANAGER_SHORT
#endif // MUELU_HIERARCHYMANAGER_HPP

//TODO: split into _decl/_def
// TODO: default value for first param (FactoryManager()) should not be duplicated (code maintainability)