PetscSolverGlobalMatrix.cc 35.6 KB
Newer Older
Thomas Witkowski's avatar
Thomas Witkowski committed
1
2
3
4
5
6
7
8
9
10
11
12
//
// Software License for AMDiS
//
// Copyright (c) 2010 Dresden University of Technology 
// All rights reserved.
// Authors: Simon Vey, Thomas Witkowski et al.
//
// This file is part of AMDiS
//
// See also license.opensource.txt in the distribution.


13
#include "AMDiS.h"
Thomas Witkowski's avatar
Thomas Witkowski committed
14
15
16
17
18
19
#include "parallel/PetscSolverGlobalMatrix.h"
#include "parallel/StdMpi.h"
#include "parallel/MpiHelper.h"

namespace AMDiS {

20
  void PetscSolverGlobalMatrix::fillPetscMatrix(Matrix<DOFMatrix*> *mat)
Thomas Witkowski's avatar
Thomas Witkowski committed
21
22
23
  {
    FUNCNAME("PetscSolverGlobalMatrix::fillPetscMatrix()");

24
    if (coarseSpaceMap != NULL) {
Thomas Witkowski's avatar
Thomas Witkowski committed
25
      updateSubdomainData();
26
27
28
29
      fillPetscMatrixWithCoarseSpace(mat);
      return;
    }

Thomas Witkowski's avatar
Thomas Witkowski committed
30
    TEST_EXIT_DBG(meshDistributor)("No mesh distributor object defined!\n");
31
    TEST_EXIT_DBG(interiorMap)("No parallel mapping object defined!\n");
Thomas Witkowski's avatar
Thomas Witkowski committed
32
    TEST_EXIT_DBG(mat)("No DOF matrix defined!\n");
33
    
Thomas Witkowski's avatar
Thomas Witkowski committed
34
    double wtime = MPI::Wtime();
35

36
37
38
    
    // === Check if mesh was changed and, in this case, recompute matrix ===
    // === nnz structure and matrix indices.                             ===
39

Thomas Witkowski's avatar
Thomas Witkowski committed
40
    int recvAllValues = 0;
41
42
    int sendValue = 
      static_cast<int>(meshDistributor->getLastMeshChangeIndex() != lastMeshNnz);
43
    mpiCommGlobal.Allreduce(&sendValue, &recvAllValues, 1, MPI_INT, MPI_SUM);
Thomas Witkowski's avatar
Thomas Witkowski committed
44

45
    if (!d_nnz || recvAllValues != 0 || alwaysCreateNnzStructure) {
46
      vector<const FiniteElemSpace*> feSpaces = getFeSpaces(mat);
47
48
      interiorMap->setComputeMatIndex(true, true);
      interiorMap->update(feSpaces);
49

Thomas Witkowski's avatar
Thomas Witkowski committed
50
51
52
53
54
55
56
      if (d_nnz) {
	delete [] d_nnz;
	d_nnz = NULL;
	delete [] o_nnz;
	o_nnz = NULL;
      }

Thomas Witkowski's avatar
Thomas Witkowski committed
57
      updateSubdomainData();
Thomas Witkowski's avatar
Thomas Witkowski committed
58
59
60
61
62
      createPetscNnzStructure(mat);
      lastMeshNnz = meshDistributor->getLastMeshChangeIndex();
    }


63
64
    // === Create PETSc vector (solution and a temporary vector). ===

65
66
    int nRankRows = interiorMap->getRankDofs();
    int nOverallRows = interiorMap->getOverallDofs();
67

68
    VecCreateMPI(mpiCommGlobal, nRankRows, nOverallRows, &petscSolVec);
69
70


Thomas Witkowski's avatar
Thomas Witkowski committed
71
72
    // === Create PETSc matrix with the computed nnz data structure. ===

73
    MatCreateAIJ(mpiCommGlobal, nRankRows, nRankRows, 
74
75
76
77
		 nOverallRows, nOverallRows,
		 0, d_nnz, 0, o_nnz, &matIntInt);

    MatSetOption(matIntInt, MAT_NEW_NONZERO_ALLOCATION_ERR, PETSC_FALSE);
78

Thomas Witkowski's avatar
Thomas Witkowski committed
79
80
81
82
83
84
#if (DEBUG != 0)
    MSG("Fill petsc matrix 1 needed %.5f seconds\n", MPI::Wtime() - wtime);
#endif

#if (DEBUG != 0)
    int a, b;
85
86
87
    MatGetOwnershipRange(matIntInt, &a, &b);
    TEST_EXIT(a == interiorMap->getStartDofs())("Wrong matrix ownership range!\n");
    TEST_EXIT(b == interiorMap->getStartDofs() + nRankRows)
Thomas Witkowski's avatar
Thomas Witkowski committed
88
89
90
91
92
93
      ("Wrong matrix ownership range!\n");
#endif


    // === Transfer values from DOF matrices to the PETSc matrix. === 

94
    int nComponents = mat->getNumRows();
Thomas Witkowski's avatar
Thomas Witkowski committed
95
96
97
    for (int i = 0; i < nComponents; i++)
      for (int j = 0; j < nComponents; j++)
	if ((*mat)[i][j])
98
	  setDofMatrix((*mat)[i][j], i, j);
Thomas Witkowski's avatar
Thomas Witkowski committed
99
100
101
102
103

#if (DEBUG != 0)
    MSG("Fill petsc matrix 2 needed %.5f seconds\n", MPI::Wtime() - wtime);
#endif

104
105
    MatAssemblyBegin(matIntInt, MAT_FINAL_ASSEMBLY);
    MatAssemblyEnd(matIntInt, MAT_FINAL_ASSEMBLY);
Thomas Witkowski's avatar
Thomas Witkowski committed
106

107
108
109

    // === Remove Dirichlet BC DOFs. ===

110
    //    removeDirichletBcDofs(mat);
111
112
    

113
    // === Init PETSc solver. ===
114

115
116
117
118
119
120
121
122
    KSPCreate(mpiCommGlobal, &kspInterior);
    KSPGetPC(kspInterior, &pcInterior);
    KSPSetOperators(kspInterior, matIntInt, matIntInt, SAME_NONZERO_PATTERN); 
    KSPSetTolerances(kspInterior, 0.0, 1e-8, PETSC_DEFAULT, PETSC_DEFAULT);
    KSPSetType(kspInterior, KSPBCGS);
    KSPSetOptionsPrefix(kspInterior, kspPrefix.c_str());
    KSPSetFromOptions(kspInterior);
    PCSetFromOptions(pcInterior);
123

124
125
    createFieldSplit(pcInterior);

126
127
    // Do not delete the solution vector, use it for the initial guess.
    if (!zeroStartVector)
128
      KSPSetInitialGuessNonzero(kspInterior, PETSC_TRUE);
129

130
131
132
133
    MSG("Fill petsc matrix needed %.5f seconds\n", MPI::Wtime() - wtime);
  }


134
135
136
137
138
139
140
141
142
143
144
145
146
  void PetscSolverGlobalMatrix::fillPetscMatrixWithCoarseSpace(Matrix<DOFMatrix*> *mat)
  {
    FUNCNAME("PetscSolverGlobalMatrix::fillPetscMatrixWithCoarseSpace()");
    
    vector<const FiniteElemSpace*> feSpaces = getFeSpaces(mat);

    int nRowsRankInterior = interiorMap->getRankDofs();
    int nRowsOverallInterior = interiorMap->getOverallDofs();

    if (subdomainLevel == 0) {
      MatCreateSeqAIJ(mpiCommLocal, nRowsRankInterior, nRowsRankInterior,
		      60, PETSC_NULL, &matIntInt);
    } else {
147
148
149
150
      MatCreateAIJ(mpiCommLocal, 
		   nRowsRankInterior, nRowsRankInterior,
		   nRowsOverallInterior, nRowsOverallInterior,
		   60, PETSC_NULL, 60, PETSC_NULL, &matIntInt);
151
152
153
154
155
156
    }

    if (coarseSpaceMap) {
      int nRowsRankCoarse = coarseSpaceMap->getRankDofs();
      int nRowsOverallCoarse = coarseSpaceMap->getOverallDofs();

157
158
159
160
      MatCreateAIJ(mpiCommGlobal,
		   nRowsRankCoarse, nRowsRankCoarse,
		   nRowsOverallCoarse, nRowsOverallCoarse,
		   60, PETSC_NULL, 60, PETSC_NULL, &matCoarseCoarse);
161
      
162
163
164
165
      MatCreateAIJ(mpiCommGlobal,
		   nRowsRankCoarse, nRowsRankInterior,
		   nRowsOverallCoarse, nGlobalOverallInterior,
		   60, PETSC_NULL, 60, PETSC_NULL, &matCoarseInt);
166
      
167
168
169
170
      MatCreateAIJ(mpiCommGlobal,
		   nRowsRankInterior, nRowsRankCoarse,
		   nGlobalOverallInterior, nRowsOverallCoarse,
		   60, PETSC_NULL, 60, PETSC_NULL, &matIntCoarse);
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
    }

    // === Prepare traverse of sequentially created matrices. ===

    using mtl::tag::row; using mtl::tag::nz; using mtl::begin; using mtl::end;
    namespace traits = mtl::traits;
    typedef DOFMatrix::base_matrix_type Matrix;

    typedef traits::range_generator<row, Matrix>::type cursor_type;
    typedef traits::range_generator<nz, cursor_type>::type icursor_type;

    vector<int> cols, colsOther;
    vector<double> values, valuesOther;
    cols.reserve(300);
    colsOther.reserve(300);
    values.reserve(300);
    valuesOther.reserve(300);

    // === Traverse all sequentially created matrices and add the values to ===
    // === the global PETSc matrices.                                       ===

    int nComponents = mat->getSize();
    for (int i = 0; i < nComponents; i++) {
      for (int j = 0; j < nComponents; j++) {
	if (!(*mat)[i][j])
	  continue;

	traits::col<Matrix>::type col((*mat)[i][j]->getBaseMatrix());
	traits::const_value<Matrix>::type value((*mat)[i][j]->getBaseMatrix());
	
	// Traverse all rows.
	for (cursor_type cursor = begin<row>((*mat)[i][j]->getBaseMatrix()), 
	       cend = end<row>((*mat)[i][j]->getBaseMatrix()); cursor != cend; ++cursor) {

	  bool rowPrimal = isCoarseSpace(feSpaces[i], *cursor);
  
	  cols.clear();
	  colsOther.clear();
	  values.clear();	  
	  valuesOther.clear();

	  // Traverse all columns.
	  for (icursor_type icursor = begin<nz>(cursor), icend = end<nz>(cursor); 
	       icursor != icend; ++icursor) {

	    bool colPrimal = isCoarseSpace(feSpaces[j], col(*icursor));

	    if (colPrimal) {
	      if (rowPrimal) {
		cols.push_back(col(*icursor));
		values.push_back(value(*icursor));
	      } else {
		colsOther.push_back(col(*icursor));
		valuesOther.push_back(value(*icursor));
	      }
	    } else {
	      if (rowPrimal) {
		colsOther.push_back(col(*icursor));
		valuesOther.push_back(value(*icursor));
	      } else {
		cols.push_back(col(*icursor));
		values.push_back(value(*icursor));
	      }
	    }
	  }  // for each nnz in row


	  // === Set matrix values. ===

	  if (rowPrimal) {
	    int rowIndex = coarseSpaceMap->getMatIndex(i, *cursor);
	    for (unsigned int k = 0; k < cols.size(); k++)
	      cols[k] = coarseSpaceMap->getMatIndex(j, cols[k]);

	    MatSetValues(matCoarseCoarse, 1, &rowIndex, cols.size(),
			 &(cols[0]), &(values[0]), ADD_VALUES);

	    if (colsOther.size()) {
	      if (subdomainLevel == 0) {
		for (unsigned int k = 0; k < colsOther.size(); k++)
		  colsOther[k] = interiorMap->getMatIndex(j, colsOther[k]);
	      } else {
		for (unsigned int k = 0; k < colsOther.size(); k++)
		  colsOther[k] = 
		    interiorMap->getMatIndex(j, colsOther[k]) + rStartInterior;
	      }
 	      
	      MatSetValues(matCoarseInt, 1, &rowIndex, colsOther.size(),
 			   &(colsOther[0]), &(valuesOther[0]), ADD_VALUES);
	    }
	  } else {
	    int localRowIndex = 
	      (subdomainLevel == 0 ? interiorMap->getLocalMatIndex(i, *cursor) :
	       interiorMap->getMatIndex(i, *cursor));

	    for (unsigned int k = 0; k < cols.size(); k++) {
	      if (subdomainLevel == 0)
		cols[k] = interiorMap->getLocalMatIndex(j, cols[k]);
	      else
		cols[k] = interiorMap->getMatIndex(j, cols[k]);
	    }
	    
  	    MatSetValues(matIntInt, 1, &localRowIndex, cols.size(),
  			 &(cols[0]), &(values[0]), ADD_VALUES);

	    if (colsOther.size()) {
	      int globalRowIndex = interiorMap->getMatIndex(i, *cursor);

	      if (subdomainLevel != 0)
		globalRowIndex += rStartInterior;

	      for (unsigned int k = 0; k < colsOther.size(); k++)
		colsOther[k] = coarseSpaceMap->getMatIndex(j, colsOther[k]);

  	      MatSetValues(matIntCoarse, 1, &globalRowIndex, colsOther.size(),
  			   &(colsOther[0]), &(valuesOther[0]), ADD_VALUES);
	    }
	  }
	} 
      }
    }

    // === Start global assembly procedure. ===

    MatAssemblyBegin(matIntInt, MAT_FINAL_ASSEMBLY);
    MatAssemblyEnd(matIntInt, MAT_FINAL_ASSEMBLY);

    if (coarseSpaceMap) {
      MatAssemblyBegin(matCoarseCoarse, MAT_FINAL_ASSEMBLY);
      MatAssemblyEnd(matCoarseCoarse, MAT_FINAL_ASSEMBLY);
      
      MatAssemblyBegin(matIntCoarse, MAT_FINAL_ASSEMBLY);
      MatAssemblyEnd(matIntCoarse, MAT_FINAL_ASSEMBLY);
      
      MatAssemblyBegin(matCoarseInt, MAT_FINAL_ASSEMBLY);
      MatAssemblyEnd(matCoarseInt, MAT_FINAL_ASSEMBLY);
    }


310
311
    // === Remove Dirichlet BC DOFs. ===

312
    //    removeDirichletBcDofs(mat);
313

314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
    // === Create solver for the non primal (thus local) variables. ===

    KSPCreate(mpiCommLocal, &kspInterior);
    KSPSetOperators(kspInterior, matIntInt, matIntInt, SAME_NONZERO_PATTERN);
    KSPSetOptionsPrefix(kspInterior, "interior_");
    KSPSetType(kspInterior, KSPPREONLY);
    PC pcInterior;
    KSPGetPC(kspInterior, &pcInterior);
    PCSetType(pcInterior, PCLU);
    if (subdomainLevel == 0)
      PCFactorSetMatSolverPackage(pcInterior, MATSOLVERUMFPACK);
    else
      PCFactorSetMatSolverPackage(pcInterior, MATSOLVERMUMPS);
    KSPSetFromOptions(kspInterior);  
  }


331
332
333
  void PetscSolverGlobalMatrix::fillPetscRhs(SystemVector *vec)
  {
    FUNCNAME("PetscSolverGlobalMatrix::fillPetscRhs()");
Thomas Witkowski's avatar
Thomas Witkowski committed
334

Thomas Witkowski's avatar
Thomas Witkowski committed
335
336
337
338
    VecCreateMPI(mpiCommGlobal, 
		 interiorMap->getRankDofs(), 
		 nGlobalOverallInterior,
		 &rhsInterior);
339

Thomas Witkowski's avatar
Thomas Witkowski committed
340
341
342
343
344
345
    if (coarseSpaceMap) 
      VecCreateMPI(mpiCommGlobal, 
		   coarseSpaceMap->getRankDofs(), 
		   coarseSpaceMap->getOverallDofs(),
		   &rhsCoarseSpace);
    
346
    TEST_EXIT_DBG(vec)("No DOF vector defined!\n");
347
    TEST_EXIT_DBG(interiorMap)("No parallel DOF map defined!\n");
Thomas Witkowski's avatar
Thomas Witkowski committed
348
    
349

Thomas Witkowski's avatar
Thomas Witkowski committed
350
    // === Transfer values from DOF vector to the PETSc vector. === 
Thomas Witkowski's avatar
Thomas Witkowski committed
351
    if (coarseSpaceMap) {
Thomas Witkowski's avatar
Thomas Witkowski committed
352
353
      for (int i = 0; i < vec->getSize(); i++)
	setDofVector(rhsInterior, rhsCoarseSpace, vec->getDOFVector(i), i);
Thomas Witkowski's avatar
Thomas Witkowski committed
354
355
356
357
    } else {
      for (int i = 0; i < vec->getSize(); i++)
	setDofVector(rhsInterior, vec->getDOFVector(i), i);
    }
Thomas Witkowski's avatar
Thomas Witkowski committed
358

359
360
    VecAssemblyBegin(rhsInterior);
    VecAssemblyEnd(rhsInterior);
361

Thomas Witkowski's avatar
Thomas Witkowski committed
362
363
364
365
366
    if (coarseSpaceMap) {
      VecAssemblyBegin(rhsCoarseSpace);
      VecAssemblyEnd(rhsCoarseSpace);
    }

367
368
369

    // === Remove Dirichlet BC DOFs. ===
    //    removeDirichletBcDofs(vec);
Thomas Witkowski's avatar
Thomas Witkowski committed
370
 
Thomas Witkowski's avatar
Thomas Witkowski committed
371
372
373
  }


374
375
  void PetscSolverGlobalMatrix::solvePetscMatrix(SystemVector &vec, 
						 AdaptInfo *adaptInfo)
Thomas Witkowski's avatar
Thomas Witkowski committed
376
377
378
379
380
381
382
383
384
385
  {
    FUNCNAME("PetscSolverGlobalMatrix::solvePetscMatrix()");

    int nComponents = vec.getSize();

    // === Set old solution to be initiual guess for PETSc solver. ===
    if (!zeroStartVector) {
      VecSet(petscSolVec, 0.0);
      
      for (int i = 0; i < nComponents; i++)
386
	setDofVector(petscSolVec, vec.getDOFVector(i), i, true);
Thomas Witkowski's avatar
Thomas Witkowski committed
387
388
389
390
391
      
      VecAssemblyBegin(petscSolVec);
      VecAssemblyEnd(petscSolVec);
    }

392

Thomas Witkowski's avatar
Thomas Witkowski committed
393
394
    MatNullSpace matNullspace;
    Vec nullspaceBasis;
395

Thomas Witkowski's avatar
Thomas Witkowski committed
396
397
    if (nullspace.size() > 0 || hasConstantNullspace) {
      TEST_EXIT_DBG(nullspace.size() <= 1)("Not yet implemented!\n");
398

Thomas Witkowski's avatar
Thomas Witkowski committed
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
      if (nullspace.size() > 0) {
	VecDuplicate(petscSolVec, &nullspaceBasis);
	for (int i = 0; i < nComponents; i++)
	  setDofVector(nullspaceBasis, nullspace[0]->getDOFVector(i), i, true);
	
	VecAssemblyBegin(nullspaceBasis);
	VecAssemblyEnd(nullspaceBasis);
	
	MatNullSpaceCreate(mpiCommGlobal, (hasConstantNullspace ? PETSC_TRUE : PETSC_FALSE), 
			   1, &nullspaceBasis, &matNullspace);

	MatMult(matIntInt, nullspaceBasis, petscSolVec);
	PetscReal n;
	VecNorm(petscSolVec, NORM_2, &n);
	MSG("NORM IS: %e\n", n);
      } else {
	MatNullSpaceCreate(mpiCommGlobal, PETSC_TRUE, 0, PETSC_NULL, &matNullspace);
      }
417

Thomas Witkowski's avatar
Thomas Witkowski committed
418
      KSPSetNullSpace(kspInterior, matNullspace);
419

Thomas Witkowski's avatar
Thomas Witkowski committed
420
      // === Remove null space, if requested. ===
421

Thomas Witkowski's avatar
Thomas Witkowski committed
422
423
424
425
426
427
428
429
      if (removeRhsNullspace) {
	TEST_EXIT_DBG(coarseSpaceMap == NULL)("Not supported!\n");
	
	MatNullSpaceRemove(matNullspace, rhsInterior, PETSC_NULL);
      }
    } else {
      TEST_EXIT(removeRhsNullspace == false)
	("No nullspace provided that should be removed from rhs!\n");
430
431
    }

Thomas Witkowski's avatar
Thomas Witkowski committed
432

Thomas Witkowski's avatar
Thomas Witkowski committed
433
    // PETSc.
434
    solve(rhsInterior, petscSolVec);
Thomas Witkowski's avatar
Thomas Witkowski committed
435

436
437

    if (nullspace.size() > 0) {
Thomas Witkowski's avatar
Thomas Witkowski committed
438
      MatNullSpaceDestroy(&matNullspace);
439
440
441
442
      VecDestroy(&nullspaceBasis);
    }


Thomas Witkowski's avatar
Thomas Witkowski committed
443
444
    // === Transfere values from PETSc's solution vectors to the DOF vectors. ===
    PetscScalar *vecPointer;
445
    VecGetArray(petscSolVec, &vecPointer);    
Thomas Witkowski's avatar
Thomas Witkowski committed
446

447
    int c = 0;
Thomas Witkowski's avatar
Thomas Witkowski committed
448
    for (int i = 0; i < nComponents; i++) {
449
      DOFVector<double> &dv = *(vec.getDOFVector(i));
450

451
      DofMap& d = (*interiorMap)[dv.getFeSpace()].getMap();
452
453
454
      for (DofMap::iterator it = d.begin(); it != d.end(); ++it)
	if (it->second.local != -1)
	  dv[it->first] = vecPointer[c++];
Thomas Witkowski's avatar
Thomas Witkowski committed
455
456
457
458
459
460
461
462
    }

    VecRestoreArray(petscSolVec, &vecPointer);


    // === Synchronize DOFs at common DOFs, i.e., DOFs that correspond to ===
    // === more than one partition.                                       ===
    meshDistributor->synchVector(vec);
463
464
465
  }


466
467
468
469
  void PetscSolverGlobalMatrix::solveGlobal(Vec &rhs, Vec &sol)
  {
    FUNCNAME("PetscSolverGlobalMatrix::solveGlobal()");

470
471
472
    double wtime = MPI::Wtime();
    double t0 = 0.0, t1 = 0.0;

473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
    Vec tmp;
    if (mpiCommLocal.Get_size() == 1)
      VecCreateSeq(mpiCommLocal, interiorMap->getRankDofs(), &tmp);
    else
      VecCreateMPI(mpiCommLocal,
		   interiorMap->getRankDofs(),
		   interiorMap->getOverallDofs(),
		   &tmp);

    PetscScalar *tmpValues, *rhsValues;
    VecGetArray(tmp, &tmpValues);
    VecGetArray(rhs, &rhsValues);

    for (int i = 0; i < interiorMap->getRankDofs(); i++)
      tmpValues[i] = rhsValues[i];

    VecRestoreArray(rhs, &rhsValues);
    VecRestoreArray(tmp, &tmpValues);

492
493
494
    t0 = MPI::Wtime() - wtime;

    wtime = MPI::Wtime();
495
    KSPSolve(kspInterior, tmp, tmp);
496
497
498
    t1 = MPI::Wtime() - wtime;

    wtime = MPI::Wtime();
499
500
501
502
503
504
505
506
507
508
509

    VecGetArray(tmp, &tmpValues);
    VecGetArray(sol, &rhsValues);

    for (int i = 0; i < interiorMap->getRankDofs(); i++) 
      rhsValues[i] = tmpValues[i];

    VecRestoreArray(sol, &rhsValues);
    VecRestoreArray(tmp, &tmpValues);

    VecDestroy(&tmp);
510
511
    t0 += MPI::Wtime() - wtime;

512
    //    MSG("TIMEING: %.5f %.5f\n", t0, t1);
513
514
515
  }


516
517
518
519
  void PetscSolverGlobalMatrix::destroyMatrixData()
  {
    FUNCNAME("PetscSolverGlobalMatrix::destroyMatrixData()");

520
521
    MatDestroy(&matIntInt);
    KSPDestroy(&kspInterior);
Thomas Witkowski's avatar
Thomas Witkowski committed
522

523
524
525
526
527
528
529
    if (coarseSpaceMap) {
      MatDestroy(&matCoarseCoarse);
      MatDestroy(&matCoarseInt);
      MatDestroy(&matIntCoarse);
    }

    if (petscSolVec != PETSC_NULL) {
Thomas Witkowski's avatar
Thomas Witkowski committed
530
      VecDestroy(&petscSolVec);
531
532
      petscSolVec = PETSC_NULL;
    }
Thomas Witkowski's avatar
Thomas Witkowski committed
533
534
535
  }


536
537
538
539
  void PetscSolverGlobalMatrix::destroyVectorData()
  {
    FUNCNAME("PetscSolverGlobalMatrix::destroyVectorData()");

540
    VecDestroy(&rhsInterior);
541
542
543

    if (coarseSpaceMap)
      VecDestroy(&rhsCoarseSpace);
544
545
546
  }


547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
  void PetscSolverGlobalMatrix::createFieldSplit(PC pc)
  {
    FUNCNAME("PetscSolverGlobalMatrix::createFieldSplit()");

    vector<string> isNames;
    Parameters::get("parallel->solver->is blocks", isNames);

    int nBlocks = isNames.size();
    if (nBlocks == 0)
      return;

    for (int i = 0; i < nBlocks; i++) {
      MSG("Create for block %s\n", isNames[i].c_str());

      vector<int> blockComponents;
      Parameters::get("parallel->solver->is block " + lexical_cast<string>(i),
		      blockComponents);
      int nComponents = static_cast<int>(blockComponents.size());

      TEST_EXIT(nComponents > 0)("No is block for block %d defined!\n", i);

      // Check if blocks are continous
      for (int j = 0; j < nComponents; j++) {
	TEST_EXIT(blockComponents[j] == blockComponents[0] + j)
	  ("Does not yet support not continous IS blocks! Block %s\n", 
	   isNames[i].c_str());
      }

      IS is;
      interiorMap->createIndexSet(is, blockComponents[0], nComponents);
      PCFieldSplitSetIS(pc, isNames[i].c_str(), is);
      ISDestroy(&is);
    }
  }


583
584
  void PetscSolverGlobalMatrix::setDofMatrix(DOFMatrix* mat,
					     int nRowMat, int nColMat)
Thomas Witkowski's avatar
Thomas Witkowski committed
585
586
587
588
589
590
  {
    FUNCNAME("PetscSolverGlobalMatrix::setDofMatrix()");

    TEST_EXIT(mat)("No DOFMatrix!\n");

    using mtl::tag::row; using mtl::tag::nz; using mtl::begin; using mtl::end;
591
    namespace traits = mtl::traits;
Thomas Witkowski's avatar
Thomas Witkowski committed
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
    typedef DOFMatrix::base_matrix_type Matrix;

    traits::col<Matrix>::type col(mat->getBaseMatrix());
    traits::const_value<Matrix>::type value(mat->getBaseMatrix());

    typedef traits::range_generator<row, Matrix>::type cursor_type;
    typedef traits::range_generator<nz, cursor_type>::type icursor_type;

    vector<int> cols;
    vector<double> values;
    cols.reserve(300);
    values.reserve(300);
    
    vector<int> globalCols;

607
608
609
    // Get periodic mapping object
    PeriodicMap &perMap = meshDistributor->getPeriodicMap();

Thomas Witkowski's avatar
Thomas Witkowski committed
610
611
612
613
614
615
    // === Traverse all rows of the dof matrix and insert row wise the values ===
    // === to the PETSc matrix.                                               ===

    for (cursor_type cursor = begin<row>(mat->getBaseMatrix()), 
	   cend = end<row>(mat->getBaseMatrix()); cursor != cend; ++cursor) {

616
617
618
      const FiniteElemSpace *rowFe = mat->getRowFeSpace();
      const FiniteElemSpace *colFe = mat->getColFeSpace();

Thomas Witkowski's avatar
Thomas Witkowski committed
619
      // Global index of the current row DOF.
620
      int globalRowDof = (*interiorMap)[rowFe][*cursor].global;
621

Thomas Witkowski's avatar
Thomas Witkowski committed
622
      // Test if the current row DOF is a periodic DOF.
623
      bool periodicRow = perMap.isPeriodic(rowFe, globalRowDof);
624

Thomas Witkowski's avatar
Thomas Witkowski committed
625
626
627
      if (!periodicRow) {
	// === Row DOF index is not periodic. ===

628
	// Get PETSc's mat row index.
629
	int rowIndex = interiorMap->getMatIndex(nRowMat, globalRowDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
630
631
632
633
634
635
636
637

	cols.clear();
	values.clear();

	for (icursor_type icursor = begin<nz>(cursor), icend = end<nz>(cursor); 
	     icursor != icend; ++icursor) {

	  // Global index of the current column index.
638
	  int globalColDof = (*interiorMap)[colFe][col(*icursor)].global;
Thomas Witkowski's avatar
Thomas Witkowski committed
639
	  // Test if the current col dof is a periodic dof.
640
	  bool periodicCol = perMap.isPeriodic(colFe, globalColDof);
641
	  // Get PETSc's mat col index.
642
	  int colIndex = interiorMap->getMatIndex(nColMat, globalColDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
643
644
645
646
647
648
649
650
651
652
653
654
655
656

	  // Ignore all zero entries, expect it is a diagonal entry.
 	  if (value(*icursor) == 0.0 && rowIndex != colIndex)
 	    continue;

	  if (!periodicCol) {
	    // Calculate the exact position of the column index in the PETSc matrix.
	    cols.push_back(colIndex);
	    values.push_back(value(*icursor));
	  } else {
	    // === Row index is not periodic, but column index is. ===

	    // Create set of all periodic associations of the column index.
	    std::set<int> perAsc;
657
	    std::set<int>& perColAsc = perMap.getAssociations(colFe, globalColDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
658
659
	    for (std::set<int>::iterator it = perColAsc.begin(); 
		 it != perColAsc.end(); ++it)
660
	      if (meshDistributor->getElementObjectDb().isValidPeriodicType(*it))
Thomas Witkowski's avatar
Thomas Witkowski committed
661
662
663
664
665
666
667
668
669
670
671
672
673
674
		perAsc.insert(*it);
    
	    // Scale value to the number of periodic associations of the column index.
	    double scaledValue = 
	      value(*icursor) * pow(0.5, static_cast<double>(perAsc.size()));

	    
	    // === Create set of all matrix column indices due to the periodic ===
	    // === associations of the column DOF index.                       ===

	    vector<int> newCols;

	    // First, add the original matrix index.
	    newCols.push_back(globalColDof);
675

Thomas Witkowski's avatar
Thomas Witkowski committed
676
677
678
679
680
681
	    // And add all periodic matrix indices.
	    for (std::set<int>::iterator it = perAsc.begin(); 
		 it != perAsc.end(); ++it) {
	      int nCols = static_cast<int>(newCols.size());

	      for (int i = 0; i < nCols; i++) {
682
 		TEST_EXIT_DBG(perMap.isPeriodic(colFe, *it, newCols[i]))
Thomas Witkowski's avatar
Thomas Witkowski committed
683
684
685
 		  ("Wrong periodic DOF associations at boundary %d with DOF %d!\n",
		   *it, newCols[i]);

686
		newCols.push_back(perMap.map(colFe, *it, newCols[i]));
Thomas Witkowski's avatar
Thomas Witkowski committed
687
688
689
690
	      }
	    }

	    for (unsigned int i = 0; i < newCols.size(); i++) {
691
	      cols.push_back(interiorMap->getMatIndex(nColMat, newCols[i]));
Thomas Witkowski's avatar
Thomas Witkowski committed
692
693
694
695
696
	      values.push_back(scaledValue);	      
	    }
	  }
	}

697
	MatSetValues(matIntInt, 1, &rowIndex, cols.size(), 
Thomas Witkowski's avatar
Thomas Witkowski committed
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
		     &(cols[0]), &(values[0]), ADD_VALUES);	
      } else {
	// === Row DOF index is periodic. ===

	// Because this row is periodic, we will have to add the entries of this 
	// matrix row to multiple rows. The following maps store to each row an
	// array of column indices and values of the entries that must be added to
	// the PETSc matrix.
	map<int, vector<int> > colsMap;
	map<int, vector<double> > valsMap;

	// Traverse all column entries.
	for (icursor_type icursor = begin<nz>(cursor), icend = end<nz>(cursor); 
	     icursor != icend; ++icursor) {
	  // Global index of the current column index.
713
	  int globalColDof = (*interiorMap)[colFe][col(*icursor)].global;
Thomas Witkowski's avatar
Thomas Witkowski committed
714
715
716
717
718
719
720
721
722
723

	  // Ignore all zero entries, expect it is a diagonal entry.
 	  if (value(*icursor) == 0.0 && globalRowDof != globalColDof)
 	    continue;

	  // === Add all periodic associations of both, the row and the column ===
	  // === indices to the set perAsc.                                    ===

	  std::set<int> perAsc;

724
725
	  if (perMap.isPeriodic(colFe, globalColDof)) {
	    std::set<int>& perColAsc = perMap.getAssociations(colFe, globalColDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
726
727
	    for (std::set<int>::iterator it = perColAsc.begin(); 
		 it != perColAsc.end(); ++it)
728
	      if (meshDistributor->getElementObjectDb().isValidPeriodicType(*it))
Thomas Witkowski's avatar
Thomas Witkowski committed
729
730
731
		perAsc.insert(*it);
	  }

732
	  std::set<int>& perRowAsc = perMap.getAssociations(rowFe, globalRowDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
733
734
	  for (std::set<int>::iterator it = perRowAsc.begin(); 
	       it != perRowAsc.end(); ++it)
735
	    if (meshDistributor->getElementObjectDb().isValidPeriodicType(*it))
Thomas Witkowski's avatar
Thomas Witkowski committed
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
	      perAsc.insert(*it);

	  // Scale the value with respect to the number of periodic associations.
	  double scaledValue = 
	    value(*icursor) * pow(0.5, static_cast<double>(perAsc.size()));


	  // === Create all matrix entries with respect to the periodic  ===
	  // === associations of the row and column indices.             ===

	  vector<pair<int, int> > entry;
	  
	  // First, add the original entry.
	  entry.push_back(make_pair(globalRowDof, globalColDof));

751
752
	  // Then, traverse the periodic associations of the row and column
	  // indices and create the corresponding entries.
Thomas Witkowski's avatar
Thomas Witkowski committed
753
754
755
756
	  for (std::set<int>::iterator it = perAsc.begin(); it != perAsc.end(); ++it) {
	    int nEntry = static_cast<int>(entry.size());
	    for (int i = 0; i < nEntry; i++) {
	      int perRowDof = 0;
757

758
759
	      if (perMap.isPeriodic(rowFe, *it, entry[i].first))
		perRowDof = perMap.map(rowFe, *it, entry[i].first);
Thomas Witkowski's avatar
Thomas Witkowski committed
760
761
762
763
	      else
		perRowDof = entry[i].first;

	      int perColDof;
764
765
	      if (perMap.isPeriodic(colFe, *it, entry[i].second))
		perColDof = perMap.map(colFe, *it, entry[i].second);
Thomas Witkowski's avatar
Thomas Witkowski committed
766
767
768
769
770
771
772
773
774
775
776
	      else
		perColDof = entry[i].second;	      	      
	      

	      entry.push_back(make_pair(perRowDof, perColDof));
	    }
	  }


	  // === Translate the matrix entries to PETSc's matrix.

777
	  for (unsigned int i = 0; i < entry.size(); i++) {
778
779
	    int rowIdx = interiorMap->getMatIndex(nRowMat, entry[i].first);
	    int colIdx = interiorMap->getMatIndex(nColMat, entry[i].second);
Thomas Witkowski's avatar
Thomas Witkowski committed
780

781
782
	    colsMap[rowIdx].push_back(colIdx);
	    valsMap[rowIdx].push_back(scaledValue);
Thomas Witkowski's avatar
Thomas Witkowski committed
783
784
785
786
787
788
789
790
791
792
793
794
	  }
	}


	// === Finally, add all periodic rows to the PETSc matrix. ===

	for (map<int, vector<int> >::iterator rowIt = colsMap.begin();
	     rowIt != colsMap.end(); ++rowIt) {
	  TEST_EXIT_DBG(rowIt->second.size() == valsMap[rowIt->first].size())
	    ("Should not happen!\n");

	  int rowIndex = rowIt->first;
795

796
	  MatSetValues(matIntInt, 1, &rowIndex, rowIt->second.size(),
Thomas Witkowski's avatar
Thomas Witkowski committed
797
798
799
800
801
802
803
		       &(rowIt->second[0]), &(valsMap[rowIt->first][0]), ADD_VALUES);
	}
      }
    }
  }


Thomas Witkowski's avatar
Thomas Witkowski committed
804
805
  void PetscSolverGlobalMatrix::setDofVector(Vec vecInterior, 
					     Vec vecCoarse,
806
					     DOFVector<double>* vec, 
807
					     int nRowVec, 
808
					     bool rankOnly)
Thomas Witkowski's avatar
Thomas Witkowski committed
809
810
811
  {
    FUNCNAME("PetscSolverGlobalMatrix::setDofVector()");

812
    const FiniteElemSpace *feSpace = vec->getFeSpace();
813
    PeriodicMap &perMap = meshDistributor->getPeriodicMap();
814

Thomas Witkowski's avatar
Thomas Witkowski committed
815
816
817
    // Traverse all used DOFs in the dof vector.
    DOFVector<double>::Iterator dofIt(vec, USED_DOFS);
    for (dofIt.reset(); !dofIt.end(); ++dofIt) {
818
      if (rankOnly && !(*interiorMap)[feSpace].isRankDof(dofIt.getDOFIndex()))
Thomas Witkowski's avatar
Thomas Witkowski committed
819
820
	continue;

821
      if (isCoarseSpace(feSpace, dofIt.getDOFIndex())) {
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
	TEST_EXIT_DBG(vecCoarse != PETSC_NULL)("Should not happen!\n");

	int index = coarseSpaceMap->getMatIndex(nRowVec, dofIt.getDOFIndex());
	VecSetValue(vecCoarse, index, *dofIt, ADD_VALUES);
      } else {
	// Calculate global row index of the DOF.
	DegreeOfFreedom globalRowDof = 
	  (*interiorMap)[feSpace][dofIt.getDOFIndex()].global;
	
	// Get PETSc's mat index of the row DOF.
	int index = 0;
	if (interiorMap->isMatIndexFromGlobal())
	  index = 
	    interiorMap->getMatIndex(nRowVec, globalRowDof) + rStartInterior;
	else
	  index =
	    interiorMap->getMatIndex(nRowVec, dofIt.getDOFIndex()) + rStartInterior;
	
	if (perMap.isPeriodic(feSpace, globalRowDof)) {
Thomas Witkowski's avatar
Thomas Witkowski committed
841
842
843
	  std::set<int>& perAsc = perMap.getAssociations(feSpace, globalRowDof);
	  double value = *dofIt / (perAsc.size() + 1.0);
	  VecSetValue(vecInterior, index, value, ADD_VALUES);
844

Thomas Witkowski's avatar
Thomas Witkowski committed
845
846
847
848
849
	  for (std::set<int>::iterator perIt = perAsc.begin(); 
	       perIt != perAsc.end(); ++perIt) {
	    int mappedDof = perMap.map(feSpace, *perIt, globalRowDof);
	    int mappedIndex = interiorMap->getMatIndex(nRowVec, mappedDof);
	    VecSetValue(vecInterior, mappedIndex, value, ADD_VALUES);
850
851
852
853
	  }	  
	} else {	  
	  // The DOF index is not periodic.
	  
Thomas Witkowski's avatar
Thomas Witkowski committed
854
855
	  VecSetValue(vecInterior, index, *dofIt, ADD_VALUES);
	}
Thomas Witkowski's avatar
Thomas Witkowski committed
856
857
858
859
860
      }
    }
  }


861
862
863
864
  void PetscSolverGlobalMatrix::removeDirichletBcDofs(Matrix<DOFMatrix*> *mat)
  {
    FUNCNAME("PetscSolverGlobalMatrix::removeDirichletBcDofs()");

Thomas Witkowski's avatar
Thomas Witkowski committed
865
#if 0
866
867
868
869
    vector<int> dofsInterior, dofsCoarse;

    int nComponents = mat->getNumRows();
    for (int i = 0; i < nComponents; i++) {
Thomas Witkowski's avatar
Thomas Witkowski committed
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
      for (int j = 0; j < nComponents; j++) {
	if ((*mat)[i][j]) {
	  const FiniteElemSpace *feSpace = (*mat)[i][j]->getRowFeSpace();
	    
	  std::set<DegreeOfFreedom> &dirichletDofs = *((*mat)[i][j]->getApplyDBCs());

	  MSG("DIRICHLET DOFS: %d %d -> %d\n", i, j, dirichletDofs.size());
	  
	  for (std::set<DegreeOfFreedom>::iterator it = dirichletDofs.begin();
	       it != dirichletDofs.end(); ++it) {
	    if (isCoarseSpace(feSpace, *it)) {
	      if ((*coarseSpaceMap)[feSpace].isRankDof(*it)) {
		int globalDof = (*coarseSpaceMap)[feSpace][*it].global;
		dofsCoarse.push_back(coarseSpaceMap->getMatIndex(i, globalDof));
	      }
	    } else {
	      if ((*interiorMap)[feSpace].isRankDof(*it)) {
		int globalDof = (*interiorMap)[feSpace][*it].global;
		dofsInterior.push_back(interiorMap->getMatIndex(i, globalDof));
	      }
890
	    }
891
	  }
Thomas Witkowski's avatar
Thomas Witkowski committed
892
893
	} else {
	  MSG("NO MAT DIAG in %d\n", i);
894
895
896
897
898
899
900
901
902
903
	}
      }
    }

    MatZeroRows(matIntInt, dofsInterior.size(), &(dofsInterior[0]), 1.0, 
		PETSC_NULL, PETSC_NULL);

    if (coarseSpaceMap != NULL)
      MatZeroRows(matCoarseCoarse, dofsCoarse.size(), &(dofsCoarse[0]), 1.0, 
		  PETSC_NULL, PETSC_NULL);
Thomas Witkowski's avatar
Thomas Witkowski committed
904
#endif
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
  }


  void PetscSolverGlobalMatrix::removeDirichletBcDofs(SystemVector *vec)
  {
    FUNCNAME("PetscSolverGlobalMatrix::removeDirichletBcDofs()");

    int nComponents = vec->getSize();
    for (int i = 0; i < nComponents; i++) {
      const FiniteElemSpace *feSpace = vec->getDOFVector(i)->getFeSpace();

      map<DegreeOfFreedom, double> &dirichletValues = 
	vec->getDOFVector(i)->getDirichletValues();

      for (map<DegreeOfFreedom, double>::iterator it = dirichletValues.begin();
	   it != dirichletValues.end(); ++it) {
	if (isCoarseSpace(feSpace, it->first)) {
922
923
924
	  if ((*coarseSpaceMap)[feSpace].isRankDof(it->first)) {
	    int globalDof = (*coarseSpaceMap)[feSpace][it->first].global;
	    VecSetValue(rhsCoarseSpace, coarseSpaceMap->getMatIndex(i, globalDof), 
925
			it->second, INSERT_VALUES);
926
	  }
927
928
	} else {
	  if ((*interiorMap)[feSpace].isRankDof(it->first)) {
929
930
	    int globalDof = (*interiorMap)[feSpace][it->first].global;
	    VecSetValue(rhsInterior, interiorMap->getMatIndex(i, globalDof),
931
932
933
934
935
			it->second, INSERT_VALUES);	    
	  }
	}
      }
    }
936
937
938
939
940
941
942
943

    VecAssemblyBegin(rhsInterior);
    VecAssemblyEnd(rhsInterior);

    if (coarseSpaceMap) {
      VecAssemblyBegin(rhsCoarseSpace);
      VecAssemblyEnd(rhsCoarseSpace);
    }
944
945
946
  }


Thomas Witkowski's avatar
Thomas Witkowski committed
947
948
949
950
951
952
953
  void PetscSolverGlobalMatrix::createPetscNnzStructure(Matrix<DOFMatrix*> *mat)
  {
    FUNCNAME("PetscSolverGlobalMatrix::createPetscNnzStructure()");

    TEST_EXIT_DBG(!d_nnz)("There is something wrong!\n");
    TEST_EXIT_DBG(!o_nnz)("There is something wrong!\n");

954
    vector<const FiniteElemSpace*> feSpaces = getFeSpaces(mat);
955
956
    int nRankRows = interiorMap->getRankDofs();
    int rankStartIndex = interiorMap->getStartDofs();
957

Thomas Witkowski's avatar
Thomas Witkowski committed
958
959
960
961
962
963
964
965
966
967
968
969
970
    d_nnz = new int[nRankRows];
    o_nnz = new int[nRankRows];
    for (int i = 0; i < nRankRows; i++) {
      d_nnz[i] = 0;
      o_nnz[i] = 0;
    }

    using mtl::tag::row; using mtl::tag::nz; using mtl::begin; using mtl::end;
    namespace traits = mtl::traits;
    typedef DOFMatrix::base_matrix_type Matrix;
    typedef vector<pair<int, int> > MatrixNnzEntry;
    typedef map<int, DofContainer> RankToDofContainer;

971
972
973
974
    // Stores to each rank a list of nnz entries (i.e. pairs of row and column
    // index) that this rank will send to. These nnz entries will be assembled
    // on this rank, but because the row DOFs are not DOFs of this rank they 
    // will be send to the owner of the row DOFs.
Thomas Witkowski's avatar
Thomas Witkowski committed
975
976
977
978
    map<int, MatrixNnzEntry> sendMatrixEntry;

    // Maps to each DOF that must be send to another rank the rank number of the
    // receiving rank.
979
    map<pair<DegreeOfFreedom, int>, int> sendDofToRank;
Thomas Witkowski's avatar
Thomas Witkowski committed
980

981

982
983
984
    // First, create for all ranks, to which we send data to, MatrixNnzEntry 
    // object with 0 entries.
    for (unsigned int i = 0; i < feSpaces.size(); i++) {
985
      for (DofComm::Iterator it(meshDistributor->getDofComm().getRecvDofs(), feSpaces[i]);
986
987
988
989
990
991
	   !it.end(); it.nextRank()) {
	sendMatrixEntry[it.getRank()].resize(0);
	
	for (; !it.endDofIter(); it.nextDof())
	  sendDofToRank[make_pair(it.getDofIndex(), i)] = it.getRank();
      }
Thomas Witkowski's avatar
Thomas Witkowski committed
992
993
    }

994
    // Create list of ranks from which we receive data from.
Thomas Witkowski's avatar
Thomas Witkowski committed
995
    std::set<int> recvFromRank;
996
    for (unsigned int i = 0; i < feSpaces.size(); i++) 
997
      for (DofComm::Iterator it(meshDistributor->getDofComm().getSendDofs(), feSpaces[i]);
998
999
1000
1001
1002
	   !it.end(); it.nextRank())
	recvFromRank.insert(it.getRank());


    // === Traverse matrices to create nnz data. ===
Thomas Witkowski's avatar
Thomas Witkowski committed
1003

1004
    int nComponents = mat->getNumRows();
Thomas Witkowski's avatar
Thomas Witkowski committed
1005
1006
1007
1008
1009
    for (int i = 0; i < nComponents; i++) {
      for (int j = 0; j < nComponents; j++) {
 	if (!(*mat)[i][j])
	  continue;

1010
1011
1012
1013
1014
	TEST_EXIT_DBG((*mat)[i][j]->getRowFeSpace() == feSpaces[i])
	  ("Should not happen!\n");
	TEST_EXIT_DBG((*mat)[i][j]->getColFeSpace() == feSpaces[j])
	  ("Should not happen!\n");

Thomas Witkowski's avatar
Thomas Witkowski committed
1015
1016
1017
1018
1019
1020
1021
1022
1023
1024
	Matrix bmat = (*mat)[i][j]->getBaseMatrix();

	traits::col<Matrix>::type col(bmat);
	traits::const_value<Matrix>::type value(bmat);
	  
	typedef traits::range_generator<row, Matrix>::type cursor_type;
	typedef traits::range_generator<nz, cursor_type>::type icursor_type;
	
	for (cursor_type cursor = begin<row>(bmat), 
	       cend = end<row>(bmat); cursor != cend; ++cursor) {
1025
	  int globalRowDof = (*interiorMap)[feSpaces[i]][*cursor].global;
1026

1027
	  // The corresponding global matrix row index of the current row DOF.
1028
1029
	  int petscRowIdx = interiorMap->getMatIndex(i, globalRowDof);
	  if ((*interiorMap)[feSpaces[i]].isRankDof(*cursor)) {
1030
    	    
1031
1032
	    // === The current row DOF is a rank DOF, so create the       ===
	    // === corresponding nnz values directly on rank's nnz data.  ===
Thomas Witkowski's avatar
Thomas Witkowski committed
1033
1034
	    
	    // This is the local row index of the local PETSc matrix.
1035
	    int localPetscRowIdx = petscRowIdx - rankStartIndex;
Thomas Witkowski's avatar
Thomas Witkowski committed
1036
1037
	    
	    TEST_EXIT_DBG(localPetscRowIdx >= 0 && localPetscRowIdx < nRankRows)
1038
	      ("Should not happen! \n Debug info: DOF = %d   globalRowIndx = %d   petscRowIdx = %d   localPetscRowIdx = %d   rStart = %d   compontens = %d from %d   nRankRows = %d\n",
1039
	       *cursor,
1040
	       (*interiorMap)[feSpaces[i]][*cursor].global,
Thomas Witkowski's avatar
Thomas Witkowski committed
1041
1042
	       petscRowIdx, 
	       localPetscRowIdx, 
1043
	       rankStartIndex,
1044
	       i,
Thomas Witkowski's avatar
Thomas Witkowski committed
1045
1046
1047
1048
1049
1050
1051
	       nComponents, 
	       nRankRows);
	    
	    
	    // Traverse all non zero entries in this row.
	    for (icursor_type icursor = begin<nz>(cursor), 
		   icend = end<nz>(cursor); icursor != icend; ++icursor) {
1052
1053
	      int globalColDof = (*interiorMap)[feSpaces[j]][col(*icursor)].global;
	      int petscColIdx = interiorMap->getMatIndex(j, globalColDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
1054
1055
1056
	      
	      if (value(*icursor) != 0.0 || petscRowIdx == petscColIdx) {
		// The row DOF is a rank DOF, if also the column is a rank DOF, 
1057
1058
1059
1060
		// increment the d_nnz values for this row, otherwise the 
		// o_nnz value.
		if (petscColIdx >= rankStartIndex && 
		    petscColIdx < rankStartIndex + nRankRows)
Thomas Witkowski's avatar
Thomas Witkowski committed
1061
1062
1063
1064
1065
1066
		  d_nnz[localPetscRowIdx]++;
		else
		  o_nnz[localPetscRowIdx]++;
	      }    
	    }
	  } else {
1067
1068
1069
1070
1071
	    // === The current row DOF is not a rank DOF, i.e., its values   ===
	    // === are also created on this rank, but afterthere they will   ===
	    // === be send to another rank. So we need to send also the      ===
	    // === corresponding nnz structure of this row to the corres-    ===
	    // === ponding rank.                                             ===
Thomas Witkowski's avatar
Thomas Witkowski committed
1072
1073
	    
	    // Send all non zero entries to the member of the row DOF.
1074
	    int sendToRank = sendDofToRank[make_pair(*cursor, i)];
Thomas Witkowski's avatar
Thomas Witkowski committed
1075
1076
1077
1078
	    
	    for (icursor_type icursor = begin<nz>(cursor), 
		   icend = end<nz>(cursor); icursor != icend; ++icursor) {
	      if (value(*icursor) != 0.0) {
1079
		int globalColDof = 
1080
1081
		  (*interiorMap)[feSpaces[j]][col(*icursor)].global;
		int petscColIdx = interiorMap->getMatIndex(j, globalColDof);
Thomas Witkowski's avatar
Thomas Witkowski committed
1082
1083
1084
1085
1086
1087
1088
1089
1090
1091
1092
1093
1094
		
		sendMatrixEntry[sendToRank].
		  push_back(make_pair(petscRowIdx, petscColIdx));
	      }
	    }
	    
	  } // if (isRankDof[*cursor]) ... else ...
	} // for each row in mat[i][j]
      } 
    }

    // === Send and recv the nnz row structure to/from other ranks. ===

1095
    StdMpi<MatrixNnzEntry> stdMpi(mpiCommGlobal, true);
Thomas Witkowski's avatar
Thomas Witkowski committed
1096
1097
1098
1099
1100
1101
1102
    stdMpi.send(sendMatrixEntry);
    for (std::set<int>::iterator it = recvFromRank.begin(); 
	 it != recvFromRank.end(); ++it)
      stdMpi.recv(*it);
    stdMpi.startCommunication();


1103
1104
    // === Evaluate the nnz structure this rank got from other ranks and add ===
    // === it to the PETSc nnz data structure.                               ===
Thomas Witkowski's avatar
Thomas Witkowski committed
1105
1106
1107
1108
1109
1110
1111
1112

    for (map<int, MatrixNnzEntry>::iterator it = stdMpi.getRecvData().begin();
	 it != stdMpi.getRecvData().end(); ++it) {
      if (it->second.size() > 0) {
	for (unsigned int i = 0; i < it->second.size(); i++) {
	  int r = it->second[i].first;
	  int c = it->second[i].second;

1113
	  int localRowIdx = r - rankStartIndex;
Thomas Witkowski's avatar
Thomas Witkowski committed
1114
1115
1116
1117
1118

	  TEST_EXIT_DBG(localRowIdx >= 0 && localRowIdx < nRankRows)
	    ("Got row index %d/%d (nRankRows = %d) from rank %d. Should not happen!\n",
	     r, localRowIdx, nRankRows, it->first);
	  
1119
	  if (c < rankStartIndex || c >= rankStartIndex + nRankRows)
Thomas Witkowski's avatar
Thomas Witkowski committed
1120
1121
1122
1123
1124
1125
1126
1127
1128
1129
1130
1131
1132
1133
1134
1135
1136
1137
1138
	    o_nnz[localRowIdx]++;
	  else
	    d_nnz[localRowIdx]++;
	}
      }
    }

    // The above algorithm for calculating the number of nnz per row over-
    // approximates the value, i.e., the number is always equal or larger to 
    // the real number of nnz values in the global parallel matrix. For small
    // matrices, the problem may arise, that the result is larger than the
    // number of elements in a row. This is fixed in the following.

    if (nRankRows < 100) 
      for (int i = 0; i < nRankRows; i++)
	d_nnz[i] = std::min(d_nnz[i], nRankRows);
  }

}