1 #include <petsc-private/dmpleximpl.h> /*I "petscdmplex.h" I*/ 2 #include <petscsf.h> 3 4 #undef __FUNCT__ 5 #define __FUNCT__ "DMPlexMarkBoundaryFaces" 6 /*@ 7 DMPlexMarkBoundaryFaces - Mark all faces on the boundary 8 9 Not Collective 10 11 Input Parameter: 12 . dm - The original DM 13 14 Output Parameter: 15 . label - The DMLabel marking boundary faces with value 1 16 17 Level: developer 18 19 .seealso: DMLabelCreate(), DMPlexCreateLabel() 20 @*/ 21 PetscErrorCode DMPlexMarkBoundaryFaces(DM dm, DMLabel label) 22 { 23 PetscInt fStart, fEnd, f; 24 PetscErrorCode ierr; 25 26 PetscFunctionBegin; 27 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 28 ierr = DMPlexGetHeightStratum(dm, 1, &fStart, &fEnd);CHKERRQ(ierr); 29 for (f = fStart; f < fEnd; ++f) { 30 PetscInt supportSize; 31 32 ierr = DMPlexGetSupportSize(dm, f, &supportSize);CHKERRQ(ierr); 33 if (supportSize == 1) { 34 ierr = DMLabelSetValue(label, f, 1);CHKERRQ(ierr); 35 } 36 } 37 PetscFunctionReturn(0); 38 } 39 40 #undef __FUNCT__ 41 #define __FUNCT__ "DMPlexLabelComplete" 42 /*@ 43 DMPlexLabelComplete - Starting with a label marking points on a surface, we add the transitive closure to the surface 44 45 Input Parameters: 46 + dm - The DM 47 - label - A DMLabel marking the surface points 48 49 Output Parameter: 50 . label - A DMLabel marking all surface points in the transitive closure 51 52 Level: developer 53 54 .seealso: DMPlexLabelCohesiveComplete() 55 @*/ 56 PetscErrorCode DMPlexLabelComplete(DM dm, DMLabel label) 57 { 58 IS valueIS; 59 const PetscInt *values; 60 PetscInt numValues, v; 61 PetscErrorCode ierr; 62 63 PetscFunctionBegin; 64 ierr = DMLabelGetNumValues(label, &numValues);CHKERRQ(ierr); 65 ierr = DMLabelGetValueIS(label, &valueIS);CHKERRQ(ierr); 66 ierr = ISGetIndices(valueIS, &values);CHKERRQ(ierr); 67 for (v = 0; v < numValues; ++v) { 68 IS pointIS; 69 const PetscInt *points; 70 PetscInt numPoints, p; 71 72 ierr = DMLabelGetStratumSize(label, values[v], &numPoints);CHKERRQ(ierr); 73 ierr = DMLabelGetStratumIS(label, values[v], &pointIS);CHKERRQ(ierr); 74 ierr = ISGetIndices(pointIS, &points);CHKERRQ(ierr); 75 for (p = 0; p < numPoints; ++p) { 76 PetscInt *closure = NULL; 77 PetscInt closureSize, c; 78 79 ierr = DMPlexGetTransitiveClosure(dm, points[p], PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 80 for (c = 0; c < closureSize*2; c += 2) { 81 ierr = DMLabelSetValue(label, closure[c], values[v]);CHKERRQ(ierr); 82 } 83 ierr = DMPlexRestoreTransitiveClosure(dm, points[p], PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 84 } 85 ierr = ISRestoreIndices(pointIS, &points);CHKERRQ(ierr); 86 ierr = ISDestroy(&pointIS);CHKERRQ(ierr); 87 } 88 ierr = ISRestoreIndices(valueIS, &values);CHKERRQ(ierr); 89 ierr = ISDestroy(&valueIS);CHKERRQ(ierr); 90 PetscFunctionReturn(0); 91 } 92 93 #undef __FUNCT__ 94 #define __FUNCT__ "DMPlexShiftPoint_Internal" 95 PETSC_STATIC_INLINE PetscInt DMPlexShiftPoint_Internal(PetscInt p, PetscInt depth, PetscInt depthEnd[], PetscInt depthShift[]) 96 { 97 if (depth < 0) return p; 98 /* Cells */ if (p < depthEnd[depth]) return p; 99 /* Vertices */ if (p < depthEnd[0]) return p + depthShift[depth]; 100 /* Faces */ if (p < depthEnd[depth-1]) return p + depthShift[depth] + depthShift[0]; 101 /* Edges */ return p + depthShift[depth] + depthShift[0] + depthShift[depth-1]; 102 } 103 104 #undef __FUNCT__ 105 #define __FUNCT__ "DMPlexShiftSizes_Internal" 106 static PetscErrorCode DMPlexShiftSizes_Internal(DM dm, PetscInt depthShift[], DM dmNew) 107 { 108 PetscInt *depthEnd; 109 PetscInt depth = 0, d, pStart, pEnd, p; 110 PetscErrorCode ierr; 111 112 PetscFunctionBegin; 113 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 114 if (depth < 0) PetscFunctionReturn(0); 115 ierr = PetscMalloc((depth+1) * sizeof(PetscInt), &depthEnd);CHKERRQ(ierr); 116 /* Step 1: Expand chart */ 117 ierr = DMPlexGetChart(dm, &pStart, &pEnd);CHKERRQ(ierr); 118 for (d = 0; d <= depth; ++d) { 119 pEnd += depthShift[d]; 120 ierr = DMPlexGetDepthStratum(dm, d, NULL, &depthEnd[d]);CHKERRQ(ierr); 121 } 122 ierr = DMPlexSetChart(dmNew, pStart, pEnd);CHKERRQ(ierr); 123 /* Step 2: Set cone and support sizes */ 124 for (d = 0; d <= depth; ++d) { 125 ierr = DMPlexGetDepthStratum(dm, d, &pStart, &pEnd);CHKERRQ(ierr); 126 for (p = pStart; p < pEnd; ++p) { 127 PetscInt newp = DMPlexShiftPoint_Internal(p, depth, depthEnd, depthShift); 128 PetscInt size; 129 130 ierr = DMPlexGetConeSize(dm, p, &size);CHKERRQ(ierr); 131 ierr = DMPlexSetConeSize(dmNew, newp, size);CHKERRQ(ierr); 132 ierr = DMPlexGetSupportSize(dm, p, &size);CHKERRQ(ierr); 133 ierr = DMPlexSetSupportSize(dmNew, newp, size);CHKERRQ(ierr); 134 } 135 } 136 ierr = PetscFree(depthEnd);CHKERRQ(ierr); 137 PetscFunctionReturn(0); 138 } 139 140 #undef __FUNCT__ 141 #define __FUNCT__ "DMPlexShiftPoints_Internal" 142 static PetscErrorCode DMPlexShiftPoints_Internal(DM dm, PetscInt depthShift[], DM dmNew) 143 { 144 PetscInt *depthEnd, *newpoints; 145 PetscInt depth = 0, d, maxConeSize, maxSupportSize, pStart, pEnd, p; 146 PetscErrorCode ierr; 147 148 PetscFunctionBegin; 149 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 150 if (depth < 0) PetscFunctionReturn(0); 151 ierr = DMPlexGetMaxSizes(dm, &maxConeSize, &maxSupportSize);CHKERRQ(ierr); 152 ierr = PetscMalloc2(depth+1,PetscInt,&depthEnd,PetscMax(maxConeSize, maxSupportSize),PetscInt,&newpoints);CHKERRQ(ierr); 153 for (d = 0; d <= depth; ++d) { 154 ierr = DMPlexGetDepthStratum(dm, d, NULL, &depthEnd[d]);CHKERRQ(ierr); 155 } 156 /* Step 5: Set cones and supports */ 157 ierr = DMPlexGetChart(dm, &pStart, &pEnd);CHKERRQ(ierr); 158 for (p = pStart; p < pEnd; ++p) { 159 const PetscInt *points = NULL, *orientations = NULL; 160 PetscInt size, i, newp = DMPlexShiftPoint_Internal(p, depth, depthEnd, depthShift); 161 162 ierr = DMPlexGetConeSize(dm, p, &size);CHKERRQ(ierr); 163 ierr = DMPlexGetCone(dm, p, &points);CHKERRQ(ierr); 164 ierr = DMPlexGetConeOrientation(dm, p, &orientations);CHKERRQ(ierr); 165 for (i = 0; i < size; ++i) { 166 newpoints[i] = DMPlexShiftPoint_Internal(points[i], depth, depthEnd, depthShift); 167 } 168 ierr = DMPlexSetCone(dmNew, newp, newpoints);CHKERRQ(ierr); 169 ierr = DMPlexSetConeOrientation(dmNew, newp, orientations);CHKERRQ(ierr); 170 ierr = DMPlexGetSupportSize(dm, p, &size);CHKERRQ(ierr); 171 ierr = DMPlexGetSupport(dm, p, &points);CHKERRQ(ierr); 172 for (i = 0; i < size; ++i) { 173 newpoints[i] = DMPlexShiftPoint_Internal(points[i], depth, depthEnd, depthShift); 174 } 175 ierr = DMPlexSetSupport(dmNew, newp, newpoints);CHKERRQ(ierr); 176 } 177 ierr = PetscFree2(depthEnd,newpoints);CHKERRQ(ierr); 178 PetscFunctionReturn(0); 179 } 180 181 #undef __FUNCT__ 182 #define __FUNCT__ "DMPlexShiftCoordinates_Internal" 183 static PetscErrorCode DMPlexShiftCoordinates_Internal(DM dm, PetscInt depthShift[], DM dmNew) 184 { 185 PetscSection coordSection, newCoordSection; 186 Vec coordinates, newCoordinates; 187 PetscScalar *coords, *newCoords; 188 PetscInt *depthEnd, coordSize; 189 PetscInt dim, depth = 0, d, vStart, vEnd, vStartNew, vEndNew, v; 190 PetscErrorCode ierr; 191 192 PetscFunctionBegin; 193 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 194 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 195 ierr = PetscMalloc((depth+1) * sizeof(PetscInt), &depthEnd);CHKERRQ(ierr); 196 for (d = 0; d <= depth; ++d) { 197 ierr = DMPlexGetDepthStratum(dm, d, NULL, &depthEnd[d]);CHKERRQ(ierr); 198 } 199 /* Step 8: Convert coordinates */ 200 ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 201 ierr = DMPlexGetDepthStratum(dmNew, 0, &vStartNew, &vEndNew);CHKERRQ(ierr); 202 ierr = DMPlexGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 203 ierr = PetscSectionCreate(PetscObjectComm((PetscObject)dm), &newCoordSection);CHKERRQ(ierr); 204 ierr = PetscSectionSetNumFields(newCoordSection, 1);CHKERRQ(ierr); 205 ierr = PetscSectionSetFieldComponents(newCoordSection, 0, dim);CHKERRQ(ierr); 206 ierr = PetscSectionSetChart(newCoordSection, vStartNew, vEndNew);CHKERRQ(ierr); 207 for (v = vStartNew; v < vEndNew; ++v) { 208 ierr = PetscSectionSetDof(newCoordSection, v, dim);CHKERRQ(ierr); 209 ierr = PetscSectionSetFieldDof(newCoordSection, v, 0, dim);CHKERRQ(ierr); 210 } 211 ierr = PetscSectionSetUp(newCoordSection);CHKERRQ(ierr); 212 ierr = DMPlexSetCoordinateSection(dmNew, newCoordSection);CHKERRQ(ierr); 213 ierr = PetscSectionGetStorageSize(newCoordSection, &coordSize);CHKERRQ(ierr); 214 ierr = VecCreate(PetscObjectComm((PetscObject)dm), &newCoordinates);CHKERRQ(ierr); 215 ierr = PetscObjectSetName((PetscObject) newCoordinates, "coordinates");CHKERRQ(ierr); 216 ierr = VecSetSizes(newCoordinates, coordSize, PETSC_DETERMINE);CHKERRQ(ierr); 217 ierr = VecSetType(newCoordinates,dm->vectype);CHKERRQ(ierr); 218 ierr = DMSetCoordinatesLocal(dmNew, newCoordinates);CHKERRQ(ierr); 219 ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr); 220 ierr = VecGetArray(coordinates, &coords);CHKERRQ(ierr); 221 ierr = VecGetArray(newCoordinates, &newCoords);CHKERRQ(ierr); 222 for (v = vStart; v < vEnd; ++v) { 223 PetscInt dof, off, noff, d; 224 225 ierr = PetscSectionGetDof(coordSection, v, &dof);CHKERRQ(ierr); 226 ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr); 227 ierr = PetscSectionGetOffset(newCoordSection, DMPlexShiftPoint_Internal(v, depth, depthEnd, depthShift), &noff);CHKERRQ(ierr); 228 for (d = 0; d < dof; ++d) { 229 newCoords[noff+d] = coords[off+d]; 230 } 231 } 232 ierr = VecRestoreArray(coordinates, &coords);CHKERRQ(ierr); 233 ierr = VecRestoreArray(newCoordinates, &newCoords);CHKERRQ(ierr); 234 ierr = VecDestroy(&newCoordinates);CHKERRQ(ierr); 235 ierr = PetscSectionDestroy(&newCoordSection);CHKERRQ(ierr); 236 ierr = PetscFree(depthEnd);CHKERRQ(ierr); 237 PetscFunctionReturn(0); 238 } 239 240 #undef __FUNCT__ 241 #define __FUNCT__ "DMPlexShiftSF_Internal" 242 static PetscErrorCode DMPlexShiftSF_Internal(DM dm, PetscInt depthShift[], DM dmNew) 243 { 244 PetscInt *depthEnd; 245 PetscInt depth = 0, d; 246 PetscSF sfPoint, sfPointNew; 247 const PetscSFNode *remotePoints; 248 PetscSFNode *gremotePoints; 249 const PetscInt *localPoints; 250 PetscInt *glocalPoints, *newLocation, *newRemoteLocation; 251 PetscInt numRoots, numLeaves, l, pStart, pEnd, totShift = 0; 252 PetscErrorCode ierr; 253 254 PetscFunctionBegin; 255 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 256 ierr = PetscMalloc((depth+1) * sizeof(PetscInt), &depthEnd);CHKERRQ(ierr); 257 for (d = 0; d <= depth; ++d) { 258 totShift += depthShift[d]; 259 ierr = DMPlexGetDepthStratum(dm, d, NULL, &depthEnd[d]);CHKERRQ(ierr); 260 } 261 /* Step 9: Convert pointSF */ 262 ierr = DMGetPointSF(dm, &sfPoint);CHKERRQ(ierr); 263 ierr = DMGetPointSF(dmNew, &sfPointNew);CHKERRQ(ierr); 264 ierr = DMPlexGetChart(dm, &pStart, &pEnd);CHKERRQ(ierr); 265 ierr = PetscSFGetGraph(sfPoint, &numRoots, &numLeaves, &localPoints, &remotePoints);CHKERRQ(ierr); 266 if (numRoots >= 0) { 267 ierr = PetscMalloc2(numRoots,PetscInt,&newLocation,pEnd-pStart,PetscInt,&newRemoteLocation);CHKERRQ(ierr); 268 for (l=0; l<numRoots; l++) newLocation[l] = DMPlexShiftPoint_Internal(l, depth, depthEnd, depthShift); 269 ierr = PetscSFBcastBegin(sfPoint, MPIU_INT, newLocation, newRemoteLocation);CHKERRQ(ierr); 270 ierr = PetscSFBcastEnd(sfPoint, MPIU_INT, newLocation, newRemoteLocation);CHKERRQ(ierr); 271 ierr = PetscMalloc(numLeaves * sizeof(PetscInt), &glocalPoints);CHKERRQ(ierr); 272 ierr = PetscMalloc(numLeaves * sizeof(PetscSFNode), &gremotePoints);CHKERRQ(ierr); 273 for (l = 0; l < numLeaves; ++l) { 274 glocalPoints[l] = DMPlexShiftPoint_Internal(localPoints[l], depth, depthEnd, depthShift); 275 gremotePoints[l].rank = remotePoints[l].rank; 276 gremotePoints[l].index = newRemoteLocation[localPoints[l]]; 277 } 278 ierr = PetscFree2(newLocation,newRemoteLocation);CHKERRQ(ierr); 279 ierr = PetscSFSetGraph(sfPointNew, numRoots + totShift, numLeaves, glocalPoints, PETSC_OWN_POINTER, gremotePoints, PETSC_OWN_POINTER);CHKERRQ(ierr); 280 } 281 ierr = PetscFree(depthEnd);CHKERRQ(ierr); 282 PetscFunctionReturn(0); 283 } 284 285 #undef __FUNCT__ 286 #define __FUNCT__ "DMPlexShiftLabels_Internal" 287 static PetscErrorCode DMPlexShiftLabels_Internal(DM dm, PetscInt depthShift[], DM dmNew) 288 { 289 PetscSF sfPoint; 290 DMLabel vtkLabel, ghostLabel; 291 PetscInt *depthEnd; 292 const PetscSFNode *leafRemote; 293 const PetscInt *leafLocal; 294 PetscInt depth = 0, d, numLeaves, numLabels, l, cStart, cEnd, c, fStart, fEnd, f; 295 PetscMPIInt rank; 296 PetscErrorCode ierr; 297 298 PetscFunctionBegin; 299 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 300 ierr = PetscMalloc((depth+1) * sizeof(PetscInt), &depthEnd);CHKERRQ(ierr); 301 for (d = 0; d <= depth; ++d) { 302 ierr = DMPlexGetDepthStratum(dm, d, NULL, &depthEnd[d]);CHKERRQ(ierr); 303 } 304 /* Step 10: Convert labels */ 305 ierr = DMPlexGetNumLabels(dm, &numLabels);CHKERRQ(ierr); 306 for (l = 0; l < numLabels; ++l) { 307 DMLabel label, newlabel; 308 const char *lname; 309 PetscBool isDepth; 310 IS valueIS; 311 const PetscInt *values; 312 PetscInt numValues, val; 313 314 ierr = DMPlexGetLabelName(dm, l, &lname);CHKERRQ(ierr); 315 ierr = PetscStrcmp(lname, "depth", &isDepth);CHKERRQ(ierr); 316 if (isDepth) continue; 317 ierr = DMPlexCreateLabel(dmNew, lname);CHKERRQ(ierr); 318 ierr = DMPlexGetLabel(dm, lname, &label);CHKERRQ(ierr); 319 ierr = DMPlexGetLabel(dmNew, lname, &newlabel);CHKERRQ(ierr); 320 ierr = DMLabelGetValueIS(label, &valueIS);CHKERRQ(ierr); 321 ierr = ISGetLocalSize(valueIS, &numValues);CHKERRQ(ierr); 322 ierr = ISGetIndices(valueIS, &values);CHKERRQ(ierr); 323 for (val = 0; val < numValues; ++val) { 324 IS pointIS; 325 const PetscInt *points; 326 PetscInt numPoints, p; 327 328 ierr = DMLabelGetStratumIS(label, values[val], &pointIS);CHKERRQ(ierr); 329 ierr = ISGetLocalSize(pointIS, &numPoints);CHKERRQ(ierr); 330 ierr = ISGetIndices(pointIS, &points);CHKERRQ(ierr); 331 for (p = 0; p < numPoints; ++p) { 332 const PetscInt newpoint = DMPlexShiftPoint_Internal(points[p], depth, depthEnd, depthShift); 333 334 ierr = DMLabelSetValue(newlabel, newpoint, values[val]);CHKERRQ(ierr); 335 } 336 ierr = ISRestoreIndices(pointIS, &points);CHKERRQ(ierr); 337 ierr = ISDestroy(&pointIS);CHKERRQ(ierr); 338 } 339 ierr = ISRestoreIndices(valueIS, &values);CHKERRQ(ierr); 340 ierr = ISDestroy(&valueIS);CHKERRQ(ierr); 341 } 342 ierr = PetscFree(depthEnd);CHKERRQ(ierr); 343 /* Step 11: Make label for output (vtk) and to mark ghost points (ghost) */ 344 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)dm), &rank);CHKERRQ(ierr); 345 ierr = DMGetPointSF(dm, &sfPoint);CHKERRQ(ierr); 346 ierr = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr); 347 ierr = PetscSFGetGraph(sfPoint, NULL, &numLeaves, &leafLocal, &leafRemote);CHKERRQ(ierr); 348 ierr = DMPlexCreateLabel(dmNew, "vtk");CHKERRQ(ierr); 349 ierr = DMPlexCreateLabel(dmNew, "ghost");CHKERRQ(ierr); 350 ierr = DMPlexGetLabel(dmNew, "vtk", &vtkLabel);CHKERRQ(ierr); 351 ierr = DMPlexGetLabel(dmNew, "ghost", &ghostLabel);CHKERRQ(ierr); 352 for (l = 0, c = cStart; l < numLeaves && c < cEnd; ++l, ++c) { 353 for (; c < leafLocal[l] && c < cEnd; ++c) { 354 ierr = DMLabelSetValue(vtkLabel, c, 1);CHKERRQ(ierr); 355 } 356 if (leafLocal[l] >= cEnd) break; 357 if (leafRemote[l].rank == rank) { 358 ierr = DMLabelSetValue(vtkLabel, c, 1);CHKERRQ(ierr); 359 } else { 360 ierr = DMLabelSetValue(ghostLabel, c, 2);CHKERRQ(ierr); 361 } 362 } 363 for (; c < cEnd; ++c) { 364 ierr = DMLabelSetValue(vtkLabel, c, 1);CHKERRQ(ierr); 365 } 366 if (0) { 367 ierr = PetscViewerASCIISynchronizedAllow(PETSC_VIEWER_STDOUT_WORLD, PETSC_TRUE);CHKERRQ(ierr); 368 ierr = DMLabelView(vtkLabel, PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); 369 ierr = PetscViewerFlush(PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); 370 } 371 ierr = DMPlexGetHeightStratum(dmNew, 1, &fStart, &fEnd);CHKERRQ(ierr); 372 for (f = fStart; f < fEnd; ++f) { 373 PetscInt numCells; 374 375 ierr = DMPlexGetSupportSize(dmNew, f, &numCells);CHKERRQ(ierr); 376 if (numCells < 2) { 377 ierr = DMLabelSetValue(ghostLabel, f, 1);CHKERRQ(ierr); 378 } else { 379 const PetscInt *cells = NULL; 380 PetscInt vA, vB; 381 382 ierr = DMPlexGetSupport(dmNew, f, &cells);CHKERRQ(ierr); 383 ierr = DMLabelGetValue(vtkLabel, cells[0], &vA);CHKERRQ(ierr); 384 ierr = DMLabelGetValue(vtkLabel, cells[1], &vB);CHKERRQ(ierr); 385 if (!vA && !vB) {ierr = DMLabelSetValue(ghostLabel, f, 1);CHKERRQ(ierr);} 386 } 387 } 388 if (0) { 389 ierr = PetscViewerASCIISynchronizedAllow(PETSC_VIEWER_STDOUT_WORLD, PETSC_TRUE);CHKERRQ(ierr); 390 ierr = DMLabelView(ghostLabel, PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); 391 ierr = PetscViewerFlush(PETSC_VIEWER_STDOUT_WORLD);CHKERRQ(ierr); 392 } 393 PetscFunctionReturn(0); 394 } 395 396 #undef __FUNCT__ 397 #define __FUNCT__ "DMPlexConstructGhostCells_Internal" 398 static PetscErrorCode DMPlexConstructGhostCells_Internal(DM dm, DMLabel label, PetscInt *numGhostCells, DM gdm) 399 { 400 IS valueIS; 401 const PetscInt *values; 402 PetscInt *depthShift; 403 PetscInt depth = 0, numFS, fs, ghostCell, cEnd, c; 404 PetscErrorCode ierr; 405 406 PetscFunctionBegin; 407 /* Count ghost cells */ 408 ierr = DMLabelGetValueIS(label, &valueIS);CHKERRQ(ierr); 409 ierr = ISGetLocalSize(valueIS, &numFS);CHKERRQ(ierr); 410 ierr = ISGetIndices(valueIS, &values);CHKERRQ(ierr); 411 412 *numGhostCells = 0; 413 for (fs = 0; fs < numFS; ++fs) { 414 PetscInt numBdFaces; 415 416 ierr = DMLabelGetStratumSize(label, values[fs], &numBdFaces);CHKERRQ(ierr); 417 418 *numGhostCells += numBdFaces; 419 } 420 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 421 ierr = PetscMalloc((depth+1) * sizeof(PetscInt), &depthShift);CHKERRQ(ierr); 422 ierr = PetscMemzero(depthShift, (depth+1) * sizeof(PetscInt));CHKERRQ(ierr); 423 if (depth >= 0) depthShift[depth] = *numGhostCells; 424 ierr = DMPlexShiftSizes_Internal(dm, depthShift, gdm);CHKERRQ(ierr); 425 /* Step 3: Set cone/support sizes for new points */ 426 ierr = DMPlexGetHeightStratum(dm, 0, NULL, &cEnd);CHKERRQ(ierr); 427 for (c = cEnd; c < cEnd + *numGhostCells; ++c) { 428 ierr = DMPlexSetConeSize(gdm, c, 1);CHKERRQ(ierr); 429 } 430 for (fs = 0; fs < numFS; ++fs) { 431 IS faceIS; 432 const PetscInt *faces; 433 PetscInt numFaces, f; 434 435 ierr = DMLabelGetStratumIS(label, values[fs], &faceIS);CHKERRQ(ierr); 436 ierr = ISGetLocalSize(faceIS, &numFaces);CHKERRQ(ierr); 437 ierr = ISGetIndices(faceIS, &faces);CHKERRQ(ierr); 438 for (f = 0; f < numFaces; ++f) { 439 PetscInt size; 440 441 ierr = DMPlexGetSupportSize(dm, faces[f], &size);CHKERRQ(ierr); 442 if (size != 1) SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "DM has boundary face %d with %d support cells", faces[f], size); 443 ierr = DMPlexSetSupportSize(gdm, faces[f] + *numGhostCells, 2);CHKERRQ(ierr); 444 } 445 ierr = ISRestoreIndices(faceIS, &faces);CHKERRQ(ierr); 446 ierr = ISDestroy(&faceIS);CHKERRQ(ierr); 447 } 448 /* Step 4: Setup ghosted DM */ 449 ierr = DMSetUp(gdm);CHKERRQ(ierr); 450 ierr = DMPlexShiftPoints_Internal(dm, depthShift, gdm);CHKERRQ(ierr); 451 /* Step 6: Set cones and supports for new points */ 452 ghostCell = cEnd; 453 for (fs = 0; fs < numFS; ++fs) { 454 IS faceIS; 455 const PetscInt *faces; 456 PetscInt numFaces, f; 457 458 ierr = DMLabelGetStratumIS(label, values[fs], &faceIS);CHKERRQ(ierr); 459 ierr = ISGetLocalSize(faceIS, &numFaces);CHKERRQ(ierr); 460 ierr = ISGetIndices(faceIS, &faces);CHKERRQ(ierr); 461 for (f = 0; f < numFaces; ++f, ++ghostCell) { 462 PetscInt newFace = faces[f] + *numGhostCells; 463 464 ierr = DMPlexSetCone(gdm, ghostCell, &newFace);CHKERRQ(ierr); 465 ierr = DMPlexInsertSupport(gdm, newFace, 1, ghostCell);CHKERRQ(ierr); 466 } 467 ierr = ISRestoreIndices(faceIS, &faces);CHKERRQ(ierr); 468 ierr = ISDestroy(&faceIS);CHKERRQ(ierr); 469 } 470 ierr = ISRestoreIndices(valueIS, &values);CHKERRQ(ierr); 471 ierr = ISDestroy(&valueIS);CHKERRQ(ierr); 472 /* Step 7: Stratify */ 473 ierr = DMPlexStratify(gdm);CHKERRQ(ierr); 474 ierr = DMPlexShiftCoordinates_Internal(dm, depthShift, gdm);CHKERRQ(ierr); 475 ierr = DMPlexShiftSF_Internal(dm, depthShift, gdm);CHKERRQ(ierr); 476 ierr = DMPlexShiftLabels_Internal(dm, depthShift, gdm);CHKERRQ(ierr); 477 ierr = PetscFree(depthShift);CHKERRQ(ierr); 478 PetscFunctionReturn(0); 479 } 480 481 #undef __FUNCT__ 482 #define __FUNCT__ "DMPlexConstructGhostCells" 483 /*@C 484 DMPlexConstructGhostCells - Construct ghost cells which connect to every boundary face 485 486 Collective on dm 487 488 Input Parameters: 489 + dm - The original DM 490 - labelName - The label specifying the boundary faces, or "Face Sets" if this is NULL 491 492 Output Parameters: 493 + numGhostCells - The number of ghost cells added to the DM 494 - dmGhosted - The new DM 495 496 Note: If no label exists of that name, one will be created marking all boundary faces 497 498 Level: developer 499 500 .seealso: DMCreate() 501 */ 502 PetscErrorCode DMPlexConstructGhostCells(DM dm, const char labelName[], PetscInt *numGhostCells, DM *dmGhosted) 503 { 504 DM gdm; 505 DMLabel label; 506 const char *name = labelName ? labelName : "Face Sets"; 507 PetscInt dim; 508 PetscErrorCode ierr; 509 510 PetscFunctionBegin; 511 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 512 PetscValidPointer(numGhostCells, 3); 513 PetscValidPointer(dmGhosted, 4); 514 ierr = DMCreate(PetscObjectComm((PetscObject)dm), &gdm);CHKERRQ(ierr); 515 ierr = DMSetType(gdm, DMPLEX);CHKERRQ(ierr); 516 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 517 ierr = DMPlexSetDimension(gdm, dim);CHKERRQ(ierr); 518 ierr = DMPlexGetLabel(dm, name, &label);CHKERRQ(ierr); 519 if (!label) { 520 /* Get label for boundary faces */ 521 ierr = DMPlexCreateLabel(dm, name);CHKERRQ(ierr); 522 ierr = DMPlexGetLabel(dm, name, &label);CHKERRQ(ierr); 523 ierr = DMPlexMarkBoundaryFaces(dm, label);CHKERRQ(ierr); 524 } 525 ierr = DMPlexConstructGhostCells_Internal(dm, label, numGhostCells, gdm);CHKERRQ(ierr); 526 ierr = DMSetFromOptions(gdm);CHKERRQ(ierr); 527 *dmGhosted = gdm; 528 PetscFunctionReturn(0); 529 } 530 531 #undef __FUNCT__ 532 #define __FUNCT__ "DMPlexConstructCohesiveCells_Internal" 533 /* 534 We are adding two kinds of points here: 535 Replicated: Copies of points which exist in the mesh, such as vertices identified across a fault 536 Hybrid: Entirely new points, such as cohesive cells 537 */ 538 static PetscErrorCode DMPlexConstructCohesiveCells_Internal(DM dm, DMLabel label, DM sdm) 539 { 540 MPI_Comm comm; 541 IS valueIS; 542 PetscInt numSP = 0; /* The number of depths for which we have replicated points */ 543 const PetscInt *values; /* List of depths for which we have replicated points */ 544 IS *pointIS; 545 PetscInt *numSplitPoints; /* The number of replicated points at each depth */ 546 PetscInt *numHybridPoints; /* The number of hybrid points at each depth */ 547 const PetscInt **splitPoints; /* Replicated points for each depth */ 548 PetscSection coordSection; 549 Vec coordinates; 550 PetscScalar *coords; 551 PetscInt depths[4]; /* Depths in the order that plex points are numbered */ 552 PetscInt *depthShift; /* Number of replicated+hybrid points at each depth */ 553 PetscInt *depthOffset; /* Prefix sums of depthShift */ 554 PetscInt *pMaxNew; /* The first replicated point at each depth in the new mesh, hybrids come after this */ 555 PetscInt *coneNew, *coneONew, *supportNew; 556 PetscInt shift = 100, depth = 0, dep, dim, d, sp, maxConeSize, maxSupportSize, numLabels, vStart, vEnd, pEnd, p, v; 557 PetscErrorCode ierr; 558 559 PetscFunctionBegin; 560 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 561 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 562 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 563 ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 564 depths[0] = depth; 565 depths[1] = 0; 566 depths[2] = depth-1; 567 depths[3] = 1; 568 /* Count split points and add cohesive cells */ 569 ierr = DMPlexGetMaxSizes(dm, &maxConeSize, &maxSupportSize);CHKERRQ(ierr); 570 ierr = PetscMalloc6(depth+1,PetscInt,&depthShift,depth+1,PetscInt,&depthOffset,depth+1,PetscInt,&pMaxNew,maxConeSize*3,PetscInt,&coneNew,maxConeSize*3,PetscInt,&coneONew,maxSupportSize,PetscInt,&supportNew);CHKERRQ(ierr); 571 ierr = PetscMalloc4(depth+1,IS,&pointIS,depth+1,PetscInt,&numSplitPoints,depth+1,PetscInt,&numHybridPoints,depth+1,const PetscInt*,&splitPoints);CHKERRQ(ierr); 572 ierr = PetscMemzero(depthShift, (depth+1) * sizeof(PetscInt));CHKERRQ(ierr); 573 ierr = PetscMemzero(depthOffset, (depth+1) * sizeof(PetscInt));CHKERRQ(ierr); 574 for (d = 0; d <= depth; ++d) { 575 ierr = DMPlexGetDepthStratum(dm, d, NULL, &pMaxNew[d]);CHKERRQ(ierr); 576 numSplitPoints[d] = 0; 577 numHybridPoints[d] = 0; 578 splitPoints[d] = NULL; 579 pointIS[d] = NULL; 580 } 581 if (label) { 582 ierr = DMLabelGetValueIS(label, &valueIS);CHKERRQ(ierr); 583 ierr = ISGetLocalSize(valueIS, &numSP);CHKERRQ(ierr); 584 ierr = ISGetIndices(valueIS, &values);CHKERRQ(ierr); 585 } 586 for (sp = 0; sp < numSP; ++sp) { 587 const PetscInt dep = values[sp]; 588 589 if ((dep < 0) || (dep > depth)) continue; 590 ierr = DMLabelGetStratumIS(label, dep, &pointIS[dep]);CHKERRQ(ierr); 591 if (pointIS[dep]) { 592 ierr = ISGetLocalSize(pointIS[dep], &numSplitPoints[dep]);CHKERRQ(ierr); 593 ierr = ISGetIndices(pointIS[dep], &splitPoints[dep]);CHKERRQ(ierr); 594 } 595 } 596 /* Calculate number of hybrid points */ 597 for (d = 1; d <= depth; ++d) numHybridPoints[d] = numSplitPoints[d-1]; /* There is a hybrid cell/face/edge for every split face/edge/vertex */ 598 for (d = 0; d <= depth; ++d) depthShift[d] = numSplitPoints[d] + numHybridPoints[d]; 599 for (d = 1; d <= depth; ++d) depthOffset[depths[d]] = depthOffset[depths[d-1]] + depthShift[depths[d-1]]; 600 for (d = 0; d <= depth; ++d) pMaxNew[d] += depthOffset[d]; 601 ierr = DMPlexShiftSizes_Internal(dm, depthShift, sdm);CHKERRQ(ierr); 602 /* Step 3: Set cone/support sizes for new points */ 603 for (dep = 0; dep <= depth; ++dep) { 604 for (p = 0; p < numSplitPoints[dep]; ++p) { 605 const PetscInt oldp = splitPoints[dep][p]; 606 const PetscInt newp = oldp + depthOffset[dep]; 607 const PetscInt splitp = p + pMaxNew[dep]; 608 const PetscInt *support; 609 PetscInt coneSize, supportSize, qf, qn, qp, e; 610 611 ierr = DMPlexGetConeSize(dm, oldp, &coneSize);CHKERRQ(ierr); 612 ierr = DMPlexSetConeSize(sdm, splitp, coneSize);CHKERRQ(ierr); 613 ierr = DMPlexGetSupportSize(dm, oldp, &supportSize);CHKERRQ(ierr); 614 ierr = DMPlexSetSupportSize(sdm, splitp, supportSize);CHKERRQ(ierr); 615 if (dep == depth-1) { 616 const PetscInt hybcell = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 617 618 /* Add cohesive cells, they are prisms */ 619 ierr = DMPlexSetConeSize(sdm, hybcell, 2 + coneSize);CHKERRQ(ierr); 620 } else if (dep == 0) { 621 const PetscInt hybedge = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 622 623 ierr = DMPlexGetSupport(dm, oldp, &support);CHKERRQ(ierr); 624 for (e = 0, qn = 0, qp = 0, qf = 0; e < supportSize; ++e) { 625 PetscInt val; 626 627 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 628 if (val == 1) ++qf; 629 if ((val == 1) || (val == (shift + 1))) ++qn; 630 if ((val == 1) || (val == -(shift + 1))) ++qp; 631 } 632 /* Split old vertex: Edges into original vertex and new cohesive edge */ 633 ierr = DMPlexSetSupportSize(sdm, newp, qn+1);CHKERRQ(ierr); 634 /* Split new vertex: Edges into split vertex and new cohesive edge */ 635 ierr = DMPlexSetSupportSize(sdm, splitp, qp+1);CHKERRQ(ierr); 636 /* Add hybrid edge */ 637 ierr = DMPlexSetConeSize(sdm, hybedge, 2);CHKERRQ(ierr); 638 ierr = DMPlexSetSupportSize(sdm, hybedge, qf);CHKERRQ(ierr); 639 } else if (dep == dim-2) { 640 const PetscInt hybface = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 641 642 ierr = DMPlexGetSupport(dm, oldp, &support);CHKERRQ(ierr); 643 for (e = 0, qn = 0, qp = 0, qf = 0; e < supportSize; ++e) { 644 PetscInt val; 645 646 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 647 if (val == dim-1) ++qf; 648 if ((val == dim-1) || (val == (shift + dim-1))) ++qn; 649 if ((val == dim-1) || (val == -(shift + dim-1))) ++qp; 650 } 651 /* Split old edge: Faces into original edge and cohesive face (positive side?) */ 652 ierr = DMPlexSetSupportSize(sdm, newp, qn+1);CHKERRQ(ierr); 653 /* Split new edge: Faces into split edge and cohesive face (negative side?) */ 654 ierr = DMPlexSetSupportSize(sdm, splitp, qp+1);CHKERRQ(ierr); 655 /* Add hybrid face */ 656 ierr = DMPlexSetConeSize(sdm, hybface, 4);CHKERRQ(ierr); 657 ierr = DMPlexSetSupportSize(sdm, hybface, qf);CHKERRQ(ierr); 658 } 659 } 660 } 661 /* Step 4: Setup split DM */ 662 ierr = DMSetUp(sdm);CHKERRQ(ierr); 663 ierr = DMPlexShiftPoints_Internal(dm, depthShift, sdm);CHKERRQ(ierr); 664 /* Step 6: Set cones and supports for new points */ 665 for (dep = 0; dep <= depth; ++dep) { 666 for (p = 0; p < numSplitPoints[dep]; ++p) { 667 const PetscInt oldp = splitPoints[dep][p]; 668 const PetscInt newp = oldp + depthOffset[dep]; 669 const PetscInt splitp = p + pMaxNew[dep]; 670 const PetscInt *cone, *support, *ornt; 671 PetscInt coneSize, supportSize, q, qf, qn, qp, v, e, s; 672 673 ierr = DMPlexGetConeSize(dm, oldp, &coneSize);CHKERRQ(ierr); 674 ierr = DMPlexGetCone(dm, oldp, &cone);CHKERRQ(ierr); 675 ierr = DMPlexGetConeOrientation(dm, oldp, &ornt);CHKERRQ(ierr); 676 ierr = DMPlexGetSupportSize(dm, oldp, &supportSize);CHKERRQ(ierr); 677 ierr = DMPlexGetSupport(dm, oldp, &support);CHKERRQ(ierr); 678 if (dep == depth-1) { 679 const PetscInt hybcell = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 680 const PetscInt *supportF; 681 682 /* Split face: copy in old face to new face to start */ 683 ierr = DMPlexGetSupport(sdm, newp, &supportF);CHKERRQ(ierr); 684 ierr = DMPlexSetSupport(sdm, splitp, supportF);CHKERRQ(ierr); 685 /* Split old face: old vertices/edges in cone so no change */ 686 /* Split new face: new vertices/edges in cone */ 687 for (q = 0; q < coneSize; ++q) { 688 ierr = PetscFindInt(cone[q], numSplitPoints[dep-1], splitPoints[dep-1], &v);CHKERRQ(ierr); 689 690 coneNew[2+q] = v + pMaxNew[dep-1]; 691 } 692 ierr = DMPlexSetCone(sdm, splitp, &coneNew[2]);CHKERRQ(ierr); 693 ierr = DMPlexSetConeOrientation(sdm, splitp, ornt);CHKERRQ(ierr); 694 /* Face support */ 695 for (s = 0; s < supportSize; ++s) { 696 PetscInt val; 697 698 ierr = DMLabelGetValue(label, support[s], &val);CHKERRQ(ierr); 699 if (val < 0) { 700 /* Split old face: Replace negative side cell with cohesive cell */ 701 ierr = DMPlexInsertSupport(sdm, newp, s, hybcell);CHKERRQ(ierr); 702 } else { 703 /* Split new face: Replace positive side cell with cohesive cell */ 704 ierr = DMPlexInsertSupport(sdm, splitp, s, hybcell);CHKERRQ(ierr); 705 /* Get orientation for cohesive face */ 706 { 707 const PetscInt *ncone, *nconeO; 708 PetscInt nconeSize, nc; 709 710 ierr = DMPlexGetConeSize(dm, support[s], &nconeSize);CHKERRQ(ierr); 711 ierr = DMPlexGetCone(dm, support[s], &ncone);CHKERRQ(ierr); 712 ierr = DMPlexGetConeOrientation(dm, support[s], &nconeO);CHKERRQ(ierr); 713 for (nc = 0; nc < nconeSize; ++nc) { 714 if (ncone[nc] == oldp) { 715 coneONew[0] = nconeO[nc]; 716 break; 717 } 718 } 719 if (nc >= nconeSize) SETERRQ2(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Could not locate face %d in neighboring cell %d", oldp, support[s]); 720 } 721 } 722 } 723 /* Cohesive cell: Old and new split face, then new cohesive faces */ 724 coneNew[0] = newp; /* Extracted negative side orientation above */ 725 coneNew[1] = splitp; 726 coneONew[1] = coneONew[0]; 727 for (q = 0; q < coneSize; ++q) { 728 coneNew[2+q] += (pMaxNew[dep] - pMaxNew[dep-1]) + numSplitPoints[dep]; 729 coneONew[2+q] = 0; 730 } 731 ierr = DMPlexSetCone(sdm, hybcell, coneNew);CHKERRQ(ierr); 732 ierr = DMPlexSetConeOrientation(sdm, hybcell, coneONew);CHKERRQ(ierr); 733 } else if (dep == 0) { 734 const PetscInt hybedge = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 735 736 /* Split old vertex: Edges in old split faces and new cohesive edge */ 737 for (e = 0, qn = 0; e < supportSize; ++e) { 738 PetscInt val; 739 740 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 741 if ((val == 1) || (val == (shift + 1))) { 742 supportNew[qn++] = support[e] + depthOffset[dep+1]; 743 } 744 } 745 supportNew[qn] = hybedge; 746 ierr = DMPlexSetSupport(sdm, newp, supportNew);CHKERRQ(ierr); 747 /* Split new vertex: Edges in new split faces and new cohesive edge */ 748 for (e = 0, qp = 0; e < supportSize; ++e) { 749 PetscInt val, edge; 750 751 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 752 if (val == 1) { 753 ierr = PetscFindInt(support[e], numSplitPoints[dep+1], splitPoints[dep+1], &edge);CHKERRQ(ierr); 754 if (edge < 0) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Edge %d is not a split edge", support[e]); 755 supportNew[qp++] = edge + pMaxNew[dep+1]; 756 } else if (val == -(shift + 1)) { 757 supportNew[qp++] = support[e] + depthOffset[dep+1]; 758 } 759 } 760 supportNew[qp] = hybedge; 761 ierr = DMPlexSetSupport(sdm, splitp, supportNew);CHKERRQ(ierr); 762 /* Hybrid edge: Old and new split vertex */ 763 coneNew[0] = newp; 764 coneNew[1] = splitp; 765 ierr = DMPlexSetCone(sdm, hybedge, coneNew);CHKERRQ(ierr); 766 for (e = 0, qf = 0; e < supportSize; ++e) { 767 PetscInt val, edge; 768 769 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 770 if (val == 1) { 771 ierr = PetscFindInt(support[e], numSplitPoints[dep+1], splitPoints[dep+1], &edge);CHKERRQ(ierr); 772 if (edge < 0) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Edge %d is not a split edge", support[e]); 773 supportNew[qf++] = edge + pMaxNew[dep+2] + numSplitPoints[dep+2]; 774 } 775 } 776 ierr = DMPlexSetSupport(sdm, hybedge, supportNew);CHKERRQ(ierr); 777 } else if (dep == dim-2) { 778 const PetscInt hybface = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 779 780 /* Split old edge: old vertices in cone so no change */ 781 /* Split new edge: new vertices in cone */ 782 for (q = 0; q < coneSize; ++q) { 783 ierr = PetscFindInt(cone[q], numSplitPoints[dep-1], splitPoints[dep-1], &v);CHKERRQ(ierr); 784 785 coneNew[q] = v + pMaxNew[dep-1]; 786 } 787 ierr = DMPlexSetCone(sdm, splitp, coneNew);CHKERRQ(ierr); 788 /* Split old edge: Faces in positive side cells and old split faces */ 789 for (e = 0, q = 0; e < supportSize; ++e) { 790 PetscInt val; 791 792 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 793 if (val == dim-1) { 794 supportNew[q++] = support[e] + depthOffset[dep+1]; 795 } else if (val == (shift + dim-1)) { 796 supportNew[q++] = support[e] + depthOffset[dep+1]; 797 } 798 } 799 supportNew[q++] = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 800 ierr = DMPlexSetSupport(sdm, newp, supportNew);CHKERRQ(ierr); 801 /* Split new edge: Faces in negative side cells and new split faces */ 802 for (e = 0, q = 0; e < supportSize; ++e) { 803 PetscInt val, face; 804 805 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 806 if (val == dim-1) { 807 ierr = PetscFindInt(support[e], numSplitPoints[dep+1], splitPoints[dep+1], &face);CHKERRQ(ierr); 808 if (face < 0) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Face %d is not a split face", support[e]); 809 supportNew[q++] = face + pMaxNew[dep+1]; 810 } else if (val == -(shift + dim-1)) { 811 supportNew[q++] = support[e] + depthOffset[dep+1]; 812 } 813 } 814 supportNew[q++] = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 815 ierr = DMPlexSetSupport(sdm, splitp, supportNew);CHKERRQ(ierr); 816 /* Hybrid face */ 817 coneNew[0] = newp; 818 coneNew[1] = splitp; 819 for (v = 0; v < coneSize; ++v) { 820 PetscInt vertex; 821 ierr = PetscFindInt(cone[v], numSplitPoints[dep-1], splitPoints[dep-1], &vertex);CHKERRQ(ierr); 822 if (vertex < 0) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Vertex %d is not a split vertex", support[e]); 823 coneNew[2+v] = vertex + pMaxNew[dep] + numSplitPoints[dep]; 824 } 825 ierr = DMPlexSetCone(sdm, hybface, coneNew);CHKERRQ(ierr); 826 for (e = 0, qf = 0; e < supportSize; ++e) { 827 PetscInt val, face; 828 829 ierr = DMLabelGetValue(label, support[e], &val);CHKERRQ(ierr); 830 if (val == dim-1) { 831 ierr = PetscFindInt(support[e], numSplitPoints[dep+1], splitPoints[dep+1], &face);CHKERRQ(ierr); 832 if (face < 0) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Face %d is not a split face", support[e]); 833 supportNew[qf++] = face + pMaxNew[dep+2] + numSplitPoints[dep+2]; 834 } 835 } 836 ierr = DMPlexSetSupport(sdm, hybface, supportNew);CHKERRQ(ierr); 837 } 838 } 839 } 840 /* Step 6b: Replace split points in negative side cones */ 841 for (sp = 0; sp < numSP; ++sp) { 842 PetscInt dep = values[sp]; 843 IS pIS; 844 PetscInt numPoints; 845 const PetscInt *points; 846 847 if (dep >= 0) continue; 848 ierr = DMLabelGetStratumIS(label, dep, &pIS);CHKERRQ(ierr); 849 if (!pIS) continue; 850 dep = -dep - shift; 851 ierr = ISGetLocalSize(pIS, &numPoints);CHKERRQ(ierr); 852 ierr = ISGetIndices(pIS, &points);CHKERRQ(ierr); 853 for (p = 0; p < numPoints; ++p) { 854 const PetscInt oldp = points[p]; 855 const PetscInt newp = depthOffset[dep] + oldp; 856 const PetscInt *cone; 857 PetscInt coneSize, c; 858 /* PetscBool replaced = PETSC_FALSE; */ 859 860 /* Negative edge: replace split vertex */ 861 /* Negative cell: replace split face */ 862 ierr = DMPlexGetConeSize(sdm, newp, &coneSize);CHKERRQ(ierr); 863 ierr = DMPlexGetCone(sdm, newp, &cone);CHKERRQ(ierr); 864 for (c = 0; c < coneSize; ++c) { 865 const PetscInt coldp = cone[c] - depthOffset[dep-1]; 866 PetscInt csplitp, cp, val; 867 868 ierr = DMLabelGetValue(label, coldp, &val);CHKERRQ(ierr); 869 if (val == dep-1) { 870 ierr = PetscFindInt(coldp, numSplitPoints[dep-1], splitPoints[dep-1], &cp);CHKERRQ(ierr); 871 if (cp < 0) SETERRQ2(comm, PETSC_ERR_ARG_WRONG, "Point %d is not a split point of dimension %d", oldp, dep-1); 872 csplitp = pMaxNew[dep-1] + cp; 873 ierr = DMPlexInsertCone(sdm, newp, c, csplitp);CHKERRQ(ierr); 874 /* replaced = PETSC_TRUE; */ 875 } 876 } 877 /* Cells with only a vertex or edge on the submesh have no replacement */ 878 /* if (!replaced) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "The cone of point %d does not contain split points", oldp); */ 879 } 880 ierr = ISRestoreIndices(pIS, &points);CHKERRQ(ierr); 881 ierr = ISDestroy(&pIS);CHKERRQ(ierr); 882 } 883 /* Step 7: Stratify */ 884 ierr = DMPlexStratify(sdm);CHKERRQ(ierr); 885 /* Step 8: Coordinates */ 886 ierr = DMPlexShiftCoordinates_Internal(dm, depthShift, sdm);CHKERRQ(ierr); 887 ierr = DMPlexGetCoordinateSection(sdm, &coordSection);CHKERRQ(ierr); 888 ierr = DMGetCoordinatesLocal(sdm, &coordinates);CHKERRQ(ierr); 889 ierr = VecGetArray(coordinates, &coords);CHKERRQ(ierr); 890 for (v = 0; v < (numSplitPoints ? numSplitPoints[0] : 0); ++v) { 891 const PetscInt newp = depthOffset[0] + splitPoints[0][v]; 892 const PetscInt splitp = pMaxNew[0] + v; 893 PetscInt dof, off, soff, d; 894 895 ierr = PetscSectionGetDof(coordSection, newp, &dof);CHKERRQ(ierr); 896 ierr = PetscSectionGetOffset(coordSection, newp, &off);CHKERRQ(ierr); 897 ierr = PetscSectionGetOffset(coordSection, splitp, &soff);CHKERRQ(ierr); 898 for (d = 0; d < dof; ++d) coords[soff+d] = coords[off+d]; 899 } 900 ierr = VecRestoreArray(coordinates, &coords);CHKERRQ(ierr); 901 /* Step 9: SF, if I can figure this out we can split the mesh in parallel */ 902 ierr = DMPlexShiftSF_Internal(dm, depthShift, sdm);CHKERRQ(ierr); 903 /* Step 10: Labels */ 904 ierr = DMPlexShiftLabels_Internal(dm, depthShift, sdm);CHKERRQ(ierr); 905 ierr = DMPlexGetNumLabels(sdm, &numLabels);CHKERRQ(ierr); 906 for (dep = 0; dep <= depth; ++dep) { 907 for (p = 0; p < numSplitPoints[dep]; ++p) { 908 const PetscInt newp = depthOffset[dep] + splitPoints[dep][p]; 909 const PetscInt splitp = pMaxNew[dep] + p; 910 PetscInt l; 911 912 for (l = 0; l < numLabels; ++l) { 913 DMLabel mlabel; 914 const char *lname; 915 PetscInt val; 916 PetscBool isDepth; 917 918 ierr = DMPlexGetLabelName(sdm, l, &lname);CHKERRQ(ierr); 919 ierr = PetscStrcmp(lname, "depth", &isDepth);CHKERRQ(ierr); 920 if (isDepth) continue; 921 ierr = DMPlexGetLabel(sdm, lname, &mlabel);CHKERRQ(ierr); 922 ierr = DMLabelGetValue(mlabel, newp, &val);CHKERRQ(ierr); 923 if (val >= 0) { 924 ierr = DMLabelSetValue(mlabel, splitp, val);CHKERRQ(ierr); 925 #if 0 926 /* Do not put cohesive edges into the label */ 927 if (dep == 0) { 928 const PetscInt cedge = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 929 ierr = DMLabelSetValue(mlabel, cedge, val);CHKERRQ(ierr); 930 } else if (dep == dim-2) { 931 const PetscInt cface = p + pMaxNew[dep+1] + numSplitPoints[dep+1]; 932 ierr = DMLabelSetValue(mlabel, cface, val);CHKERRQ(ierr); 933 } 934 /* Do not put cohesive faces into the label */ 935 #endif 936 } 937 } 938 } 939 } 940 for (sp = 0; sp < numSP; ++sp) { 941 const PetscInt dep = values[sp]; 942 943 if ((dep < 0) || (dep > depth)) continue; 944 if (pointIS[dep]) {ierr = ISRestoreIndices(pointIS[dep], &splitPoints[dep]);CHKERRQ(ierr);} 945 ierr = ISDestroy(&pointIS[dep]);CHKERRQ(ierr); 946 } 947 if (label) { 948 ierr = ISRestoreIndices(valueIS, &values);CHKERRQ(ierr); 949 ierr = ISDestroy(&valueIS);CHKERRQ(ierr); 950 } 951 for (d = 0; d <= depth; ++d) { 952 ierr = DMPlexGetDepthStratum(sdm, d, NULL, &pEnd);CHKERRQ(ierr); 953 pMaxNew[d] = pEnd - numHybridPoints[d]; 954 } 955 ierr = DMPlexSetHybridBounds(sdm, depth >= 0 ? pMaxNew[depth] : PETSC_DETERMINE, depth>1 ? pMaxNew[depth-1] : PETSC_DETERMINE, depth>2 ? pMaxNew[1] : PETSC_DETERMINE, depth >= 0 ? pMaxNew[0] : PETSC_DETERMINE);CHKERRQ(ierr); 956 ierr = PetscFree6(depthShift, depthOffset, pMaxNew, coneNew, coneONew, supportNew);CHKERRQ(ierr); 957 ierr = PetscFree4(pointIS, numSplitPoints, numHybridPoints, splitPoints);CHKERRQ(ierr); 958 PetscFunctionReturn(0); 959 } 960 961 #undef __FUNCT__ 962 #define __FUNCT__ "DMPlexConstructCohesiveCells" 963 /*@C 964 DMPlexConstructCohesiveCells - Construct cohesive cells which split the face along an internal interface 965 966 Collective on dm 967 968 Input Parameters: 969 + dm - The original DM 970 - label - The label specifying the boundary faces (this could be auto-generated) 971 972 Output Parameters: 973 - dmSplit - The new DM 974 975 Level: developer 976 977 .seealso: DMCreate(), DMPlexLabelCohesiveComplete() 978 @*/ 979 PetscErrorCode DMPlexConstructCohesiveCells(DM dm, DMLabel label, DM *dmSplit) 980 { 981 DM sdm; 982 PetscInt dim; 983 PetscErrorCode ierr; 984 985 PetscFunctionBegin; 986 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 987 PetscValidPointer(dmSplit, 3); 988 ierr = DMCreate(PetscObjectComm((PetscObject)dm), &sdm);CHKERRQ(ierr); 989 ierr = DMSetType(sdm, DMPLEX);CHKERRQ(ierr); 990 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 991 ierr = DMPlexSetDimension(sdm, dim);CHKERRQ(ierr); 992 switch (dim) { 993 case 2: 994 case 3: 995 ierr = DMPlexConstructCohesiveCells_Internal(dm, label, sdm);CHKERRQ(ierr); 996 break; 997 default: 998 SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_OUTOFRANGE, "Cannot construct cohesive cells for dimension %d", dim); 999 } 1000 *dmSplit = sdm; 1001 PetscFunctionReturn(0); 1002 } 1003 1004 #undef __FUNCT__ 1005 #define __FUNCT__ "DMPlexLabelCohesiveComplete" 1006 /*@ 1007 DMPlexLabelCohesiveComplete - Starting with a label marking vertices on an internal surface, we add all other mesh pieces 1008 to complete the surface 1009 1010 Input Parameters: 1011 + dm - The DM 1012 . label - A DMLabel marking the surface vertices 1013 . flip - Flag to flip the submesh normal and replace points on the other side 1014 - subdm - The subDM associated with the label, or NULL 1015 1016 Output Parameter: 1017 . label - A DMLabel marking all surface points 1018 1019 Level: developer 1020 1021 .seealso: DMPlexConstructCohesiveCells(), DMPlexLabelComplete() 1022 @*/ 1023 PetscErrorCode DMPlexLabelCohesiveComplete(DM dm, DMLabel label, PetscBool flip, DM subdm) 1024 { 1025 DMLabel depthLabel; 1026 IS dimIS, subpointIS; 1027 const PetscInt *points, *subpoints; 1028 const PetscInt rev = flip ? -1 : 1; 1029 PetscInt shift = 100, dim, dep, cStart, cEnd, numPoints, numSubpoints, p, val; 1030 PetscErrorCode ierr; 1031 1032 PetscFunctionBegin; 1033 ierr = DMPlexGetDepthLabel(dm, &depthLabel);CHKERRQ(ierr); 1034 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 1035 if (subdm) { 1036 ierr = DMPlexCreateSubpointIS(subdm, &subpointIS);CHKERRQ(ierr); 1037 if (subpointIS) { 1038 ierr = ISGetLocalSize(subpointIS, &numSubpoints);CHKERRQ(ierr); 1039 ierr = ISGetIndices(subpointIS, &subpoints);CHKERRQ(ierr); 1040 } 1041 } 1042 /* Cell orientation for face gives the side of the fault */ 1043 ierr = DMLabelGetStratumIS(label, dim-1, &dimIS);CHKERRQ(ierr); 1044 if (!dimIS) PetscFunctionReturn(0); 1045 ierr = ISGetLocalSize(dimIS, &numPoints);CHKERRQ(ierr); 1046 ierr = ISGetIndices(dimIS, &points);CHKERRQ(ierr); 1047 for (p = 0; p < numPoints; ++p) { 1048 const PetscInt *support; 1049 PetscInt supportSize, s; 1050 1051 ierr = DMPlexGetSupportSize(dm, points[p], &supportSize);CHKERRQ(ierr); 1052 if (supportSize != 2) SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Split face %d has %d != 2 supports", points[p], supportSize); 1053 ierr = DMPlexGetSupport(dm, points[p], &support);CHKERRQ(ierr); 1054 for (s = 0; s < supportSize; ++s) { 1055 const PetscInt *cone, *ornt; 1056 PetscInt coneSize, c; 1057 PetscBool pos = PETSC_TRUE; 1058 1059 ierr = DMPlexGetConeSize(dm, support[s], &coneSize);CHKERRQ(ierr); 1060 ierr = DMPlexGetCone(dm, support[s], &cone);CHKERRQ(ierr); 1061 ierr = DMPlexGetConeOrientation(dm, support[s], &ornt);CHKERRQ(ierr); 1062 for (c = 0; c < coneSize; ++c) { 1063 if (cone[c] == points[p]) { 1064 PetscInt o = ornt[c]; 1065 1066 if (subdm) { 1067 const PetscInt *subcone, *subornt; 1068 PetscInt subpoint, subface, subconeSize, sc; 1069 1070 ierr = PetscFindInt(support[s], numSubpoints, subpoints, &subpoint);CHKERRQ(ierr); 1071 ierr = PetscFindInt(points[p], numSubpoints, subpoints, &subface);CHKERRQ(ierr); 1072 ierr = DMPlexGetConeSize(subdm, subpoint, &subconeSize);CHKERRQ(ierr); 1073 ierr = DMPlexGetCone(subdm, subpoint, &subcone);CHKERRQ(ierr); 1074 ierr = DMPlexGetConeOrientation(subdm, subpoint, &subornt);CHKERRQ(ierr); 1075 for (sc = 0; sc < subconeSize; ++sc) { 1076 if (subcone[sc] == subface) { 1077 o = subornt[0]; 1078 break; 1079 } 1080 } 1081 if (sc >= subconeSize) SETERRQ2(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Could not find point %d in cone for subpoint %d", points[p], subpoint); 1082 } 1083 if (o >= 0) { 1084 ierr = DMLabelSetValue(label, support[s], rev*(shift+dim));CHKERRQ(ierr); 1085 pos = rev > 0 ? PETSC_TRUE : PETSC_FALSE; 1086 } else { 1087 ierr = DMLabelSetValue(label, support[s], -rev*(shift+dim));CHKERRQ(ierr); 1088 pos = rev > 0 ? PETSC_FALSE : PETSC_TRUE; 1089 } 1090 break; 1091 } 1092 } 1093 if (c == coneSize) SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Cell split face %d support does not have it in the cone", points[p]); 1094 /* Put faces touching the fault in the label */ 1095 for (c = 0; c < coneSize; ++c) { 1096 const PetscInt point = cone[c]; 1097 1098 ierr = DMLabelGetValue(label, point, &val);CHKERRQ(ierr); 1099 if (val == -1) { 1100 PetscInt *closure = NULL; 1101 PetscInt closureSize, cl; 1102 1103 ierr = DMPlexGetTransitiveClosure(dm, point, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1104 for (cl = 0; cl < closureSize*2; cl += 2) { 1105 const PetscInt clp = closure[cl]; 1106 1107 ierr = DMLabelGetValue(label, clp, &val);CHKERRQ(ierr); 1108 if ((val >= 0) && (val < dim-1)) { 1109 ierr = DMLabelSetValue(label, point, pos == PETSC_TRUE ? shift+dim-1 : -(shift+dim-1));CHKERRQ(ierr); 1110 break; 1111 } 1112 } 1113 ierr = DMPlexRestoreTransitiveClosure(dm, point, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1114 } 1115 } 1116 } 1117 } 1118 if (subdm) { 1119 if (subpointIS) {ierr = ISRestoreIndices(subpointIS, &subpoints);CHKERRQ(ierr);} 1120 ierr = ISDestroy(&subpointIS);CHKERRQ(ierr); 1121 } 1122 ierr = ISRestoreIndices(dimIS, &points);CHKERRQ(ierr); 1123 ierr = ISDestroy(&dimIS);CHKERRQ(ierr); 1124 /* Search for other cells/faces/edges connected to the fault by a vertex */ 1125 ierr = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr); 1126 ierr = DMLabelGetStratumIS(label, 0, &dimIS);CHKERRQ(ierr); 1127 if (!dimIS) PetscFunctionReturn(0); 1128 ierr = ISGetLocalSize(dimIS, &numPoints);CHKERRQ(ierr); 1129 ierr = ISGetIndices(dimIS, &points);CHKERRQ(ierr); 1130 for (p = 0; p < numPoints; ++p) { 1131 PetscInt *star = NULL; 1132 PetscInt starSize, s; 1133 PetscInt again = 1; /* 0: Finished 1: Keep iterating after a change 2: No change */ 1134 1135 /* First mark cells connected to the fault */ 1136 ierr = DMPlexGetTransitiveClosure(dm, points[p], PETSC_FALSE, &starSize, &star);CHKERRQ(ierr); 1137 while (again) { 1138 if (again > 1) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_PLIB, "Could not classify all cells connected to the fault"); 1139 again = 0; 1140 for (s = 0; s < starSize*2; s += 2) { 1141 const PetscInt point = star[s]; 1142 const PetscInt *cone; 1143 PetscInt coneSize, c; 1144 1145 if ((point < cStart) || (point >= cEnd)) continue; 1146 ierr = DMLabelGetValue(label, point, &val);CHKERRQ(ierr); 1147 if (val != -1) continue; 1148 again = 2; 1149 ierr = DMPlexGetConeSize(dm, point, &coneSize);CHKERRQ(ierr); 1150 ierr = DMPlexGetCone(dm, point, &cone);CHKERRQ(ierr); 1151 for (c = 0; c < coneSize; ++c) { 1152 ierr = DMLabelGetValue(label, cone[c], &val);CHKERRQ(ierr); 1153 if (val != -1) { 1154 if (abs(val) < shift) SETERRQ3(PetscObjectComm((PetscObject)dm), PETSC_ERR_PLIB, "Face %d on cell %d has an invalid label %d", cone[c], point, val); 1155 if (val > 0) { 1156 ierr = DMLabelSetValue(label, point, shift+dim);CHKERRQ(ierr); 1157 } else { 1158 ierr = DMLabelSetValue(label, point, -(shift+dim));CHKERRQ(ierr); 1159 } 1160 again = 1; 1161 break; 1162 } 1163 } 1164 } 1165 } 1166 /* Classify the rest by cell membership */ 1167 for (s = 0; s < starSize*2; s += 2) { 1168 const PetscInt point = star[s]; 1169 1170 ierr = DMLabelGetValue(label, point, &val);CHKERRQ(ierr); 1171 if (val == -1) { 1172 PetscInt *sstar = NULL; 1173 PetscInt sstarSize, ss; 1174 PetscBool marked = PETSC_FALSE; 1175 1176 ierr = DMPlexGetTransitiveClosure(dm, point, PETSC_FALSE, &sstarSize, &sstar);CHKERRQ(ierr); 1177 for (ss = 0; ss < sstarSize*2; ss += 2) { 1178 const PetscInt spoint = sstar[ss]; 1179 1180 if ((spoint < cStart) || (spoint >= cEnd)) continue; 1181 ierr = DMLabelGetValue(label, spoint, &val);CHKERRQ(ierr); 1182 if (val == -1) SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_PLIB, "Cell %d in star of %d does not have a valid label", spoint, point); 1183 ierr = DMLabelGetValue(depthLabel, point, &dep);CHKERRQ(ierr); 1184 if (val > 0) { 1185 ierr = DMLabelSetValue(label, point, shift+dep);CHKERRQ(ierr); 1186 } else { 1187 ierr = DMLabelSetValue(label, point, -(shift+dep));CHKERRQ(ierr); 1188 } 1189 marked = PETSC_TRUE; 1190 break; 1191 } 1192 ierr = DMPlexRestoreTransitiveClosure(dm, point, PETSC_FALSE, &sstarSize, &sstar);CHKERRQ(ierr); 1193 if (!marked) SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_PLIB, "Point %d could not be classified", point); 1194 } 1195 } 1196 ierr = DMPlexRestoreTransitiveClosure(dm, points[p], PETSC_FALSE, &starSize, &star);CHKERRQ(ierr); 1197 } 1198 ierr = ISRestoreIndices(dimIS, &points);CHKERRQ(ierr); 1199 ierr = ISDestroy(&dimIS);CHKERRQ(ierr); 1200 PetscFunctionReturn(0); 1201 } 1202 1203 #undef __FUNCT__ 1204 #define __FUNCT__ "DMPlexCreateHybridMesh" 1205 /*@C 1206 DMPlexCreateHybridMesh - Create a mesh with hybrid cells along an internal interface 1207 1208 Collective on dm 1209 1210 Input Parameters: 1211 + dm - The original DM 1212 - labelName - The label specifying the interface vertices 1213 1214 Output Parameters: 1215 + hybridLabel - The label fully marking the interface 1216 - dmHybrid - The new DM 1217 1218 Level: developer 1219 1220 .seealso: DMPlexConstructCohesiveCells(), DMPlexLabelCohesiveComplete(), DMCreate() 1221 @*/ 1222 PetscErrorCode DMPlexCreateHybridMesh(DM dm, DMLabel label, DMLabel *hybridLabel, DM *dmHybrid) 1223 { 1224 DM idm; 1225 DMLabel subpointMap, hlabel; 1226 PetscInt dim; 1227 PetscErrorCode ierr; 1228 1229 PetscFunctionBegin; 1230 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 1231 if (hybridLabel) PetscValidPointer(hybridLabel, 3); 1232 PetscValidPointer(dmHybrid, 4); 1233 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 1234 ierr = DMPlexCreateSubmesh(dm, label, 1, &idm);CHKERRQ(ierr); 1235 ierr = DMPlexOrient(idm);CHKERRQ(ierr); 1236 ierr = DMPlexGetSubpointMap(idm, &subpointMap);CHKERRQ(ierr); 1237 ierr = DMLabelDuplicate(subpointMap, &hlabel);CHKERRQ(ierr); 1238 ierr = DMLabelClearStratum(hlabel, dim);CHKERRQ(ierr); 1239 ierr = DMPlexLabelCohesiveComplete(dm, hlabel, PETSC_FALSE, idm);CHKERRQ(ierr); 1240 ierr = DMDestroy(&idm);CHKERRQ(ierr); 1241 ierr = DMPlexConstructCohesiveCells(dm, hlabel, dmHybrid);CHKERRQ(ierr); 1242 if (hybridLabel) *hybridLabel = hlabel; 1243 PetscFunctionReturn(0); 1244 } 1245 1246 #undef __FUNCT__ 1247 #define __FUNCT__ "DMPlexMarkSubmesh_Uninterpolated" 1248 /* Here we need the explicit assumption that: 1249 1250 For any marked cell, the marked vertices constitute a single face 1251 */ 1252 static PetscErrorCode DMPlexMarkSubmesh_Uninterpolated(DM dm, DMLabel vertexLabel, PetscInt value, DMLabel subpointMap, PetscInt *numFaces, PetscInt *nFV, DM subdm) 1253 { 1254 IS subvertexIS = NULL; 1255 const PetscInt *subvertices; 1256 PetscInt *pStart, *pEnd, *pMax, pSize; 1257 PetscInt depth, dim, d, numSubVerticesInitial = 0, v; 1258 PetscErrorCode ierr; 1259 1260 PetscFunctionBegin; 1261 *numFaces = 0; 1262 *nFV = 0; 1263 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 1264 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 1265 pSize = PetscMax(depth, dim) + 1; 1266 ierr = PetscMalloc3(pSize,PetscInt,&pStart,pSize,PetscInt,&pEnd,pSize,PetscInt,&pMax);CHKERRQ(ierr); 1267 ierr = DMPlexGetHybridBounds(dm, depth >= 0 ? &pMax[depth] : NULL, depth>1 ? &pMax[depth-1] : NULL, depth>2 ? &pMax[1] : NULL, &pMax[0]);CHKERRQ(ierr); 1268 for (d = 0; d <= depth; ++d) { 1269 ierr = DMPlexGetDepthStratum(dm, d, &pStart[d], &pEnd[d]);CHKERRQ(ierr); 1270 if (pMax[d] >= 0) pEnd[d] = PetscMin(pEnd[d], pMax[d]); 1271 } 1272 /* Loop over initial vertices and mark all faces in the collective star() */ 1273 if (vertexLabel) {ierr = DMLabelGetStratumIS(vertexLabel, value, &subvertexIS);CHKERRQ(ierr);} 1274 if (subvertexIS) { 1275 ierr = ISGetSize(subvertexIS, &numSubVerticesInitial);CHKERRQ(ierr); 1276 ierr = ISGetIndices(subvertexIS, &subvertices);CHKERRQ(ierr); 1277 } 1278 for (v = 0; v < numSubVerticesInitial; ++v) { 1279 const PetscInt vertex = subvertices[v]; 1280 PetscInt *star = NULL; 1281 PetscInt starSize, s, numCells = 0, c; 1282 1283 ierr = DMPlexGetTransitiveClosure(dm, vertex, PETSC_FALSE, &starSize, &star);CHKERRQ(ierr); 1284 for (s = 0; s < starSize*2; s += 2) { 1285 const PetscInt point = star[s]; 1286 if ((point >= pStart[depth]) && (point < pEnd[depth])) star[numCells++] = point; 1287 } 1288 for (c = 0; c < numCells; ++c) { 1289 const PetscInt cell = star[c]; 1290 PetscInt *closure = NULL; 1291 PetscInt closureSize, cl; 1292 PetscInt cellLoc, numCorners = 0, faceSize = 0; 1293 1294 ierr = DMLabelGetValue(subpointMap, cell, &cellLoc);CHKERRQ(ierr); 1295 if (cellLoc == 2) continue; 1296 if (cellLoc >= 0) SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_PLIB, "Cell %d has dimension %d in the surface label", cell, cellLoc); 1297 ierr = DMPlexGetTransitiveClosure(dm, cell, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1298 for (cl = 0; cl < closureSize*2; cl += 2) { 1299 const PetscInt point = closure[cl]; 1300 PetscInt vertexLoc; 1301 1302 if ((point >= pStart[0]) && (point < pEnd[0])) { 1303 ++numCorners; 1304 ierr = DMLabelGetValue(vertexLabel, point, &vertexLoc);CHKERRQ(ierr); 1305 if (vertexLoc == value) closure[faceSize++] = point; 1306 } 1307 } 1308 if (!(*nFV)) {ierr = DMPlexGetNumFaceVertices(dm, dim, numCorners, nFV);CHKERRQ(ierr);} 1309 if (faceSize > *nFV) SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Invalid submesh: Too many vertices %d of an element on the surface", faceSize); 1310 if (faceSize == *nFV) { 1311 const PetscInt *cells = NULL; 1312 PetscInt numCells, nc; 1313 1314 ++(*numFaces); 1315 for (cl = 0; cl < faceSize; ++cl) { 1316 ierr = DMLabelSetValue(subpointMap, closure[cl], 0);CHKERRQ(ierr); 1317 } 1318 ierr = DMPlexGetJoin(dm, faceSize, closure, &numCells, &cells);CHKERRQ(ierr); 1319 for (nc = 0; nc < numCells; ++nc) { 1320 ierr = DMLabelSetValue(subpointMap, cells[nc], 2);CHKERRQ(ierr); 1321 } 1322 ierr = DMPlexRestoreJoin(dm, faceSize, closure, &numCells, &cells);CHKERRQ(ierr); 1323 } 1324 ierr = DMPlexRestoreTransitiveClosure(dm, cell, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1325 } 1326 ierr = DMPlexRestoreTransitiveClosure(dm, vertex, PETSC_FALSE, &starSize, &star);CHKERRQ(ierr); 1327 } 1328 if (subvertexIS) { 1329 ierr = ISRestoreIndices(subvertexIS, &subvertices);CHKERRQ(ierr); 1330 } 1331 ierr = ISDestroy(&subvertexIS);CHKERRQ(ierr); 1332 ierr = PetscFree3(pStart,pEnd,pMax);CHKERRQ(ierr); 1333 PetscFunctionReturn(0); 1334 } 1335 1336 #undef __FUNCT__ 1337 #define __FUNCT__ "DMPlexMarkSubmesh_Interpolated" 1338 static PetscErrorCode DMPlexMarkSubmesh_Interpolated(DM dm, DMLabel vertexLabel, PetscInt value, DMLabel subpointMap, DM subdm) 1339 { 1340 IS subvertexIS; 1341 const PetscInt *subvertices; 1342 PetscInt *pStart, *pEnd, *pMax; 1343 PetscInt dim, d, numSubVerticesInitial = 0, v; 1344 PetscErrorCode ierr; 1345 1346 PetscFunctionBegin; 1347 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 1348 ierr = PetscMalloc3(dim+1,PetscInt,&pStart,dim+1,PetscInt,&pEnd,dim+1,PetscInt,&pMax);CHKERRQ(ierr); 1349 ierr = DMPlexGetHybridBounds(dm, &pMax[dim], dim>1 ? &pMax[dim-1] : NULL, dim > 2 ? &pMax[1] : NULL, &pMax[0]);CHKERRQ(ierr); 1350 for (d = 0; d <= dim; ++d) { 1351 ierr = DMPlexGetDepthStratum(dm, d, &pStart[d], &pEnd[d]);CHKERRQ(ierr); 1352 if (pMax[d] >= 0) pEnd[d] = PetscMin(pEnd[d], pMax[d]); 1353 } 1354 /* Loop over initial vertices and mark all faces in the collective star() */ 1355 ierr = DMLabelGetStratumIS(vertexLabel, value, &subvertexIS);CHKERRQ(ierr); 1356 if (subvertexIS) { 1357 ierr = ISGetSize(subvertexIS, &numSubVerticesInitial);CHKERRQ(ierr); 1358 ierr = ISGetIndices(subvertexIS, &subvertices);CHKERRQ(ierr); 1359 } 1360 for (v = 0; v < numSubVerticesInitial; ++v) { 1361 const PetscInt vertex = subvertices[v]; 1362 PetscInt *star = NULL; 1363 PetscInt starSize, s, numFaces = 0, f; 1364 1365 ierr = DMPlexGetTransitiveClosure(dm, vertex, PETSC_FALSE, &starSize, &star);CHKERRQ(ierr); 1366 for (s = 0; s < starSize*2; s += 2) { 1367 const PetscInt point = star[s]; 1368 if ((point >= pStart[dim-1]) && (point < pEnd[dim-1])) star[numFaces++] = point; 1369 } 1370 for (f = 0; f < numFaces; ++f) { 1371 const PetscInt face = star[f]; 1372 PetscInt *closure = NULL; 1373 PetscInt closureSize, c; 1374 PetscInt faceLoc; 1375 1376 ierr = DMLabelGetValue(subpointMap, face, &faceLoc);CHKERRQ(ierr); 1377 if (faceLoc == dim-1) continue; 1378 if (faceLoc >= 0) SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_PLIB, "Face %d has dimension %d in the surface label", face, faceLoc); 1379 ierr = DMPlexGetTransitiveClosure(dm, face, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1380 for (c = 0; c < closureSize*2; c += 2) { 1381 const PetscInt point = closure[c]; 1382 PetscInt vertexLoc; 1383 1384 if ((point >= pStart[0]) && (point < pEnd[0])) { 1385 ierr = DMLabelGetValue(vertexLabel, point, &vertexLoc);CHKERRQ(ierr); 1386 if (vertexLoc != value) break; 1387 } 1388 } 1389 if (c == closureSize*2) { 1390 const PetscInt *support; 1391 PetscInt supportSize, s; 1392 1393 for (c = 0; c < closureSize*2; c += 2) { 1394 const PetscInt point = closure[c]; 1395 1396 for (d = 0; d < dim; ++d) { 1397 if ((point >= pStart[d]) && (point < pEnd[d])) { 1398 ierr = DMLabelSetValue(subpointMap, point, d);CHKERRQ(ierr); 1399 break; 1400 } 1401 } 1402 } 1403 ierr = DMPlexGetSupportSize(dm, face, &supportSize);CHKERRQ(ierr); 1404 ierr = DMPlexGetSupport(dm, face, &support);CHKERRQ(ierr); 1405 for (s = 0; s < supportSize; ++s) { 1406 ierr = DMLabelSetValue(subpointMap, support[s], dim);CHKERRQ(ierr); 1407 } 1408 } 1409 ierr = DMPlexRestoreTransitiveClosure(dm, face, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1410 } 1411 ierr = DMPlexRestoreTransitiveClosure(dm, vertex, PETSC_FALSE, &starSize, &star);CHKERRQ(ierr); 1412 } 1413 if (subvertexIS) { 1414 ierr = ISRestoreIndices(subvertexIS, &subvertices);CHKERRQ(ierr); 1415 } 1416 ierr = ISDestroy(&subvertexIS);CHKERRQ(ierr); 1417 ierr = PetscFree3(pStart,pEnd,pMax);CHKERRQ(ierr); 1418 PetscFunctionReturn(0); 1419 } 1420 1421 #undef __FUNCT__ 1422 #define __FUNCT__ "DMPlexMarkCohesiveSubmesh_Uninterpolated" 1423 static PetscErrorCode DMPlexMarkCohesiveSubmesh_Uninterpolated(DM dm, PetscBool hasLagrange, const char labelname[], PetscInt value, DMLabel subpointMap, PetscInt *numFaces, PetscInt *nFV, PetscInt *subCells[], DM subdm) 1424 { 1425 DMLabel label = NULL; 1426 const PetscInt *cone; 1427 PetscInt dim, cMax, cEnd, c, subc = 0, p, coneSize; 1428 PetscErrorCode ierr; 1429 1430 PetscFunctionBegin; 1431 *numFaces = 0; 1432 *nFV = 0; 1433 if (labelname) {ierr = DMPlexGetLabel(dm, labelname, &label);CHKERRQ(ierr);} 1434 *subCells = NULL; 1435 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 1436 ierr = DMPlexGetHeightStratum(dm, 0, NULL, &cEnd);CHKERRQ(ierr); 1437 ierr = DMPlexGetHybridBounds(dm, &cMax, NULL, NULL, NULL);CHKERRQ(ierr); 1438 if (cMax < 0) PetscFunctionReturn(0); 1439 if (label) { 1440 for (c = cMax; c < cEnd; ++c) { 1441 PetscInt val; 1442 1443 ierr = DMLabelGetValue(label, c, &val);CHKERRQ(ierr); 1444 if (val == value) { 1445 ++(*numFaces); 1446 ierr = DMPlexGetConeSize(dm, c, &coneSize);CHKERRQ(ierr); 1447 } 1448 } 1449 } else { 1450 *numFaces = cEnd - cMax; 1451 ierr = DMPlexGetConeSize(dm, cMax, &coneSize);CHKERRQ(ierr); 1452 } 1453 *nFV = hasLagrange ? coneSize/3 : coneSize/2; 1454 ierr = PetscMalloc(*numFaces *2 * sizeof(PetscInt), subCells);CHKERRQ(ierr); 1455 for (c = cMax; c < cEnd; ++c) { 1456 const PetscInt *cells; 1457 PetscInt numCells; 1458 1459 if (label) { 1460 PetscInt val; 1461 1462 ierr = DMLabelGetValue(label, c, &val);CHKERRQ(ierr); 1463 if (val != value) continue; 1464 } 1465 ierr = DMPlexGetCone(dm, c, &cone);CHKERRQ(ierr); 1466 for (p = 0; p < *nFV; ++p) { 1467 ierr = DMLabelSetValue(subpointMap, cone[p], 0);CHKERRQ(ierr); 1468 } 1469 /* Negative face */ 1470 ierr = DMPlexGetJoin(dm, *nFV, cone, &numCells, &cells);CHKERRQ(ierr); 1471 /* Not true in parallel 1472 if (numCells != 2) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Cohesive cells should separate two cells"); */ 1473 for (p = 0; p < numCells; ++p) { 1474 ierr = DMLabelSetValue(subpointMap, cells[p], 2);CHKERRQ(ierr); 1475 (*subCells)[subc++] = cells[p]; 1476 } 1477 ierr = DMPlexRestoreJoin(dm, *nFV, cone, &numCells, &cells);CHKERRQ(ierr); 1478 /* Positive face is not included */ 1479 } 1480 PetscFunctionReturn(0); 1481 } 1482 1483 #undef __FUNCT__ 1484 #define __FUNCT__ "DMPlexMarkCohesiveSubmesh_Interpolated" 1485 static PetscErrorCode DMPlexMarkCohesiveSubmesh_Interpolated(DM dm, PetscBool hasLagrange, const char labelname[], PetscInt value, DMLabel subpointMap, DM subdm) 1486 { 1487 DMLabel label = NULL; 1488 PetscInt *pStart, *pEnd; 1489 PetscInt dim, cMax, cEnd, c, d; 1490 PetscErrorCode ierr; 1491 1492 PetscFunctionBegin; 1493 if (labelname) {ierr = DMPlexGetLabel(dm, labelname, &label);CHKERRQ(ierr);} 1494 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 1495 ierr = DMPlexGetHeightStratum(dm, 0, NULL, &cEnd);CHKERRQ(ierr); 1496 ierr = DMPlexGetHybridBounds(dm, &cMax, NULL, NULL, NULL);CHKERRQ(ierr); 1497 if (cMax < 0) PetscFunctionReturn(0); 1498 ierr = PetscMalloc2(dim+1,PetscInt,&pStart,dim+1,PetscInt,&pEnd);CHKERRQ(ierr); 1499 for (d = 0; d <= dim; ++d) { 1500 ierr = DMPlexGetDepthStratum(dm, d, &pStart[d], &pEnd[d]);CHKERRQ(ierr); 1501 } 1502 for (c = cMax; c < cEnd; ++c) { 1503 const PetscInt *cone; 1504 PetscInt *closure = NULL; 1505 PetscInt coneSize, closureSize, cl; 1506 1507 if (label) { 1508 PetscInt val; 1509 1510 ierr = DMLabelGetValue(label, c, &val);CHKERRQ(ierr); 1511 if (val != value) continue; 1512 } 1513 ierr = DMPlexGetConeSize(dm, c, &coneSize);CHKERRQ(ierr); 1514 if (hasLagrange) { 1515 if (coneSize != 3) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Cohesive cells should separate two cells"); 1516 } else { 1517 if (coneSize != 2) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Cohesive cells should separate two cells"); 1518 } 1519 /* Negative face */ 1520 ierr = DMPlexGetCone(dm, c, &cone);CHKERRQ(ierr); 1521 ierr = DMPlexGetTransitiveClosure(dm, cone[0], PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1522 for (cl = 0; cl < closureSize*2; cl += 2) { 1523 const PetscInt point = closure[cl]; 1524 1525 for (d = 0; d <= dim; ++d) { 1526 if ((point >= pStart[d]) && (point < pEnd[d])) { 1527 ierr = DMLabelSetValue(subpointMap, point, d);CHKERRQ(ierr); 1528 break; 1529 } 1530 } 1531 } 1532 ierr = DMPlexRestoreTransitiveClosure(dm, cone[0], PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1533 /* Cells -- positive face is not included */ 1534 for (cl = 0; cl < 1; ++cl) { 1535 const PetscInt *support; 1536 PetscInt supportSize, s; 1537 1538 ierr = DMPlexGetSupportSize(dm, cone[cl], &supportSize);CHKERRQ(ierr); 1539 if (supportSize != 2) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Cohesive faces should separate two cells"); 1540 ierr = DMPlexGetSupport(dm, cone[cl], &support);CHKERRQ(ierr); 1541 for (s = 0; s < supportSize; ++s) { 1542 ierr = DMLabelSetValue(subpointMap, support[s], dim);CHKERRQ(ierr); 1543 } 1544 } 1545 } 1546 ierr = PetscFree2(pStart, pEnd);CHKERRQ(ierr); 1547 PetscFunctionReturn(0); 1548 } 1549 1550 #undef __FUNCT__ 1551 #define __FUNCT__ "DMPlexGetFaceOrientation" 1552 PetscErrorCode DMPlexGetFaceOrientation(DM dm, PetscInt cell, PetscInt numCorners, PetscInt indices[], PetscInt oppositeVertex, PetscInt origVertices[], PetscInt faceVertices[], PetscBool *posOriented) 1553 { 1554 MPI_Comm comm; 1555 PetscBool posOrient = PETSC_FALSE; 1556 const PetscInt debug = 0; 1557 PetscInt cellDim, faceSize, f; 1558 PetscErrorCode ierr; 1559 1560 PetscFunctionBegin; 1561 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 1562 ierr = DMPlexGetDimension(dm, &cellDim);CHKERRQ(ierr); 1563 if (debug) {PetscPrintf(comm, "cellDim: %d numCorners: %d\n", cellDim, numCorners);CHKERRQ(ierr);} 1564 1565 if (cellDim == 1 && numCorners == 2) { 1566 /* Triangle */ 1567 faceSize = numCorners-1; 1568 posOrient = !(oppositeVertex%2) ? PETSC_TRUE : PETSC_FALSE; 1569 } else if (cellDim == 2 && numCorners == 3) { 1570 /* Triangle */ 1571 faceSize = numCorners-1; 1572 posOrient = !(oppositeVertex%2) ? PETSC_TRUE : PETSC_FALSE; 1573 } else if (cellDim == 3 && numCorners == 4) { 1574 /* Tetrahedron */ 1575 faceSize = numCorners-1; 1576 posOrient = (oppositeVertex%2) ? PETSC_TRUE : PETSC_FALSE; 1577 } else if (cellDim == 1 && numCorners == 3) { 1578 /* Quadratic line */ 1579 faceSize = 1; 1580 posOrient = PETSC_TRUE; 1581 } else if (cellDim == 2 && numCorners == 4) { 1582 /* Quads */ 1583 faceSize = 2; 1584 if ((indices[1] > indices[0]) && (indices[1] - indices[0] == 1)) { 1585 posOrient = PETSC_TRUE; 1586 } else if ((indices[0] == 3) && (indices[1] == 0)) { 1587 posOrient = PETSC_TRUE; 1588 } else { 1589 if (((indices[0] > indices[1]) && (indices[0] - indices[1] == 1)) || ((indices[0] == 0) && (indices[1] == 3))) { 1590 posOrient = PETSC_FALSE; 1591 } else SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Invalid quad crossedge"); 1592 } 1593 } else if (cellDim == 2 && numCorners == 6) { 1594 /* Quadratic triangle (I hate this) */ 1595 /* Edges are determined by the first 2 vertices (corners of edges) */ 1596 const PetscInt faceSizeTri = 3; 1597 PetscInt sortedIndices[3], i, iFace; 1598 PetscBool found = PETSC_FALSE; 1599 PetscInt faceVerticesTriSorted[9] = { 1600 0, 3, 4, /* bottom */ 1601 1, 4, 5, /* right */ 1602 2, 3, 5, /* left */ 1603 }; 1604 PetscInt faceVerticesTri[9] = { 1605 0, 3, 4, /* bottom */ 1606 1, 4, 5, /* right */ 1607 2, 5, 3, /* left */ 1608 }; 1609 1610 faceSize = faceSizeTri; 1611 for (i = 0; i < faceSizeTri; ++i) sortedIndices[i] = indices[i]; 1612 ierr = PetscSortInt(faceSizeTri, sortedIndices);CHKERRQ(ierr); 1613 for (iFace = 0; iFace < 3; ++iFace) { 1614 const PetscInt ii = iFace*faceSizeTri; 1615 PetscInt fVertex, cVertex; 1616 1617 if ((sortedIndices[0] == faceVerticesTriSorted[ii+0]) && 1618 (sortedIndices[1] == faceVerticesTriSorted[ii+1])) { 1619 for (fVertex = 0; fVertex < faceSizeTri; ++fVertex) { 1620 for (cVertex = 0; cVertex < faceSizeTri; ++cVertex) { 1621 if (indices[cVertex] == faceVerticesTri[ii+fVertex]) { 1622 faceVertices[fVertex] = origVertices[cVertex]; 1623 break; 1624 } 1625 } 1626 } 1627 found = PETSC_TRUE; 1628 break; 1629 } 1630 } 1631 if (!found) SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Invalid tri crossface"); 1632 if (posOriented) *posOriented = PETSC_TRUE; 1633 PetscFunctionReturn(0); 1634 } else if (cellDim == 2 && numCorners == 9) { 1635 /* Quadratic quad (I hate this) */ 1636 /* Edges are determined by the first 2 vertices (corners of edges) */ 1637 const PetscInt faceSizeQuad = 3; 1638 PetscInt sortedIndices[3], i, iFace; 1639 PetscBool found = PETSC_FALSE; 1640 PetscInt faceVerticesQuadSorted[12] = { 1641 0, 1, 4, /* bottom */ 1642 1, 2, 5, /* right */ 1643 2, 3, 6, /* top */ 1644 0, 3, 7, /* left */ 1645 }; 1646 PetscInt faceVerticesQuad[12] = { 1647 0, 1, 4, /* bottom */ 1648 1, 2, 5, /* right */ 1649 2, 3, 6, /* top */ 1650 3, 0, 7, /* left */ 1651 }; 1652 1653 faceSize = faceSizeQuad; 1654 for (i = 0; i < faceSizeQuad; ++i) sortedIndices[i] = indices[i]; 1655 ierr = PetscSortInt(faceSizeQuad, sortedIndices);CHKERRQ(ierr); 1656 for (iFace = 0; iFace < 4; ++iFace) { 1657 const PetscInt ii = iFace*faceSizeQuad; 1658 PetscInt fVertex, cVertex; 1659 1660 if ((sortedIndices[0] == faceVerticesQuadSorted[ii+0]) && 1661 (sortedIndices[1] == faceVerticesQuadSorted[ii+1])) { 1662 for (fVertex = 0; fVertex < faceSizeQuad; ++fVertex) { 1663 for (cVertex = 0; cVertex < faceSizeQuad; ++cVertex) { 1664 if (indices[cVertex] == faceVerticesQuad[ii+fVertex]) { 1665 faceVertices[fVertex] = origVertices[cVertex]; 1666 break; 1667 } 1668 } 1669 } 1670 found = PETSC_TRUE; 1671 break; 1672 } 1673 } 1674 if (!found) SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Invalid quad crossface"); 1675 if (posOriented) *posOriented = PETSC_TRUE; 1676 PetscFunctionReturn(0); 1677 } else if (cellDim == 3 && numCorners == 8) { 1678 /* Hexes 1679 A hex is two oriented quads with the normal of the first 1680 pointing up at the second. 1681 1682 7---6 1683 /| /| 1684 4---5 | 1685 | 1-|-2 1686 |/ |/ 1687 0---3 1688 1689 Faces are determined by the first 4 vertices (corners of faces) */ 1690 const PetscInt faceSizeHex = 4; 1691 PetscInt sortedIndices[4], i, iFace; 1692 PetscBool found = PETSC_FALSE; 1693 PetscInt faceVerticesHexSorted[24] = { 1694 0, 1, 2, 3, /* bottom */ 1695 4, 5, 6, 7, /* top */ 1696 0, 3, 4, 5, /* front */ 1697 2, 3, 5, 6, /* right */ 1698 1, 2, 6, 7, /* back */ 1699 0, 1, 4, 7, /* left */ 1700 }; 1701 PetscInt faceVerticesHex[24] = { 1702 1, 2, 3, 0, /* bottom */ 1703 4, 5, 6, 7, /* top */ 1704 0, 3, 5, 4, /* front */ 1705 3, 2, 6, 5, /* right */ 1706 2, 1, 7, 6, /* back */ 1707 1, 0, 4, 7, /* left */ 1708 }; 1709 1710 faceSize = faceSizeHex; 1711 for (i = 0; i < faceSizeHex; ++i) sortedIndices[i] = indices[i]; 1712 ierr = PetscSortInt(faceSizeHex, sortedIndices);CHKERRQ(ierr); 1713 for (iFace = 0; iFace < 6; ++iFace) { 1714 const PetscInt ii = iFace*faceSizeHex; 1715 PetscInt fVertex, cVertex; 1716 1717 if ((sortedIndices[0] == faceVerticesHexSorted[ii+0]) && 1718 (sortedIndices[1] == faceVerticesHexSorted[ii+1]) && 1719 (sortedIndices[2] == faceVerticesHexSorted[ii+2]) && 1720 (sortedIndices[3] == faceVerticesHexSorted[ii+3])) { 1721 for (fVertex = 0; fVertex < faceSizeHex; ++fVertex) { 1722 for (cVertex = 0; cVertex < faceSizeHex; ++cVertex) { 1723 if (indices[cVertex] == faceVerticesHex[ii+fVertex]) { 1724 faceVertices[fVertex] = origVertices[cVertex]; 1725 break; 1726 } 1727 } 1728 } 1729 found = PETSC_TRUE; 1730 break; 1731 } 1732 } 1733 if (!found) SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Invalid hex crossface"); 1734 if (posOriented) *posOriented = PETSC_TRUE; 1735 PetscFunctionReturn(0); 1736 } else if (cellDim == 3 && numCorners == 10) { 1737 /* Quadratic tet */ 1738 /* Faces are determined by the first 3 vertices (corners of faces) */ 1739 const PetscInt faceSizeTet = 6; 1740 PetscInt sortedIndices[6], i, iFace; 1741 PetscBool found = PETSC_FALSE; 1742 PetscInt faceVerticesTetSorted[24] = { 1743 0, 1, 2, 6, 7, 8, /* bottom */ 1744 0, 3, 4, 6, 7, 9, /* front */ 1745 1, 4, 5, 7, 8, 9, /* right */ 1746 2, 3, 5, 6, 8, 9, /* left */ 1747 }; 1748 PetscInt faceVerticesTet[24] = { 1749 0, 1, 2, 6, 7, 8, /* bottom */ 1750 0, 4, 3, 6, 7, 9, /* front */ 1751 1, 5, 4, 7, 8, 9, /* right */ 1752 2, 3, 5, 8, 6, 9, /* left */ 1753 }; 1754 1755 faceSize = faceSizeTet; 1756 for (i = 0; i < faceSizeTet; ++i) sortedIndices[i] = indices[i]; 1757 ierr = PetscSortInt(faceSizeTet, sortedIndices);CHKERRQ(ierr); 1758 for (iFace=0; iFace < 4; ++iFace) { 1759 const PetscInt ii = iFace*faceSizeTet; 1760 PetscInt fVertex, cVertex; 1761 1762 if ((sortedIndices[0] == faceVerticesTetSorted[ii+0]) && 1763 (sortedIndices[1] == faceVerticesTetSorted[ii+1]) && 1764 (sortedIndices[2] == faceVerticesTetSorted[ii+2]) && 1765 (sortedIndices[3] == faceVerticesTetSorted[ii+3])) { 1766 for (fVertex = 0; fVertex < faceSizeTet; ++fVertex) { 1767 for (cVertex = 0; cVertex < faceSizeTet; ++cVertex) { 1768 if (indices[cVertex] == faceVerticesTet[ii+fVertex]) { 1769 faceVertices[fVertex] = origVertices[cVertex]; 1770 break; 1771 } 1772 } 1773 } 1774 found = PETSC_TRUE; 1775 break; 1776 } 1777 } 1778 if (!found) SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Invalid tet crossface"); 1779 if (posOriented) *posOriented = PETSC_TRUE; 1780 PetscFunctionReturn(0); 1781 } else if (cellDim == 3 && numCorners == 27) { 1782 /* Quadratic hexes (I hate this) 1783 A hex is two oriented quads with the normal of the first 1784 pointing up at the second. 1785 1786 7---6 1787 /| /| 1788 4---5 | 1789 | 3-|-2 1790 |/ |/ 1791 0---1 1792 1793 Faces are determined by the first 4 vertices (corners of faces) */ 1794 const PetscInt faceSizeQuadHex = 9; 1795 PetscInt sortedIndices[9], i, iFace; 1796 PetscBool found = PETSC_FALSE; 1797 PetscInt faceVerticesQuadHexSorted[54] = { 1798 0, 1, 2, 3, 8, 9, 10, 11, 24, /* bottom */ 1799 4, 5, 6, 7, 12, 13, 14, 15, 25, /* top */ 1800 0, 1, 4, 5, 8, 12, 16, 17, 22, /* front */ 1801 1, 2, 5, 6, 9, 13, 17, 18, 21, /* right */ 1802 2, 3, 6, 7, 10, 14, 18, 19, 23, /* back */ 1803 0, 3, 4, 7, 11, 15, 16, 19, 20, /* left */ 1804 }; 1805 PetscInt faceVerticesQuadHex[54] = { 1806 3, 2, 1, 0, 10, 9, 8, 11, 24, /* bottom */ 1807 4, 5, 6, 7, 12, 13, 14, 15, 25, /* top */ 1808 0, 1, 5, 4, 8, 17, 12, 16, 22, /* front */ 1809 1, 2, 6, 5, 9, 18, 13, 17, 21, /* right */ 1810 2, 3, 7, 6, 10, 19, 14, 18, 23, /* back */ 1811 3, 0, 4, 7, 11, 16, 15, 19, 20 /* left */ 1812 }; 1813 1814 faceSize = faceSizeQuadHex; 1815 for (i = 0; i < faceSizeQuadHex; ++i) sortedIndices[i] = indices[i]; 1816 ierr = PetscSortInt(faceSizeQuadHex, sortedIndices);CHKERRQ(ierr); 1817 for (iFace = 0; iFace < 6; ++iFace) { 1818 const PetscInt ii = iFace*faceSizeQuadHex; 1819 PetscInt fVertex, cVertex; 1820 1821 if ((sortedIndices[0] == faceVerticesQuadHexSorted[ii+0]) && 1822 (sortedIndices[1] == faceVerticesQuadHexSorted[ii+1]) && 1823 (sortedIndices[2] == faceVerticesQuadHexSorted[ii+2]) && 1824 (sortedIndices[3] == faceVerticesQuadHexSorted[ii+3])) { 1825 for (fVertex = 0; fVertex < faceSizeQuadHex; ++fVertex) { 1826 for (cVertex = 0; cVertex < faceSizeQuadHex; ++cVertex) { 1827 if (indices[cVertex] == faceVerticesQuadHex[ii+fVertex]) { 1828 faceVertices[fVertex] = origVertices[cVertex]; 1829 break; 1830 } 1831 } 1832 } 1833 found = PETSC_TRUE; 1834 break; 1835 } 1836 } 1837 if (!found) SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Invalid hex crossface"); 1838 if (posOriented) *posOriented = PETSC_TRUE; 1839 PetscFunctionReturn(0); 1840 } else SETERRQ(comm, PETSC_ERR_ARG_WRONG, "Unknown cell type for faceOrientation()."); 1841 if (!posOrient) { 1842 if (debug) {ierr = PetscPrintf(comm, " Reversing initial face orientation\n");CHKERRQ(ierr);} 1843 for (f = 0; f < faceSize; ++f) faceVertices[f] = origVertices[faceSize-1 - f]; 1844 } else { 1845 if (debug) {ierr = PetscPrintf(comm, " Keeping initial face orientation\n");CHKERRQ(ierr);} 1846 for (f = 0; f < faceSize; ++f) faceVertices[f] = origVertices[f]; 1847 } 1848 if (posOriented) *posOriented = posOrient; 1849 PetscFunctionReturn(0); 1850 } 1851 1852 #undef __FUNCT__ 1853 #define __FUNCT__ "DMPlexGetOrientedFace" 1854 /* 1855 Given a cell and a face, as a set of vertices, 1856 return the oriented face, as a set of vertices, in faceVertices 1857 The orientation is such that the face normal points out of the cell 1858 */ 1859 PetscErrorCode DMPlexGetOrientedFace(DM dm, PetscInt cell, PetscInt faceSize, const PetscInt face[], PetscInt numCorners, PetscInt indices[], PetscInt origVertices[], PetscInt faceVertices[], PetscBool *posOriented) 1860 { 1861 const PetscInt *cone = NULL; 1862 PetscInt coneSize, v, f, v2; 1863 PetscInt oppositeVertex = -1; 1864 PetscErrorCode ierr; 1865 1866 PetscFunctionBegin; 1867 ierr = DMPlexGetConeSize(dm, cell, &coneSize);CHKERRQ(ierr); 1868 ierr = DMPlexGetCone(dm, cell, &cone);CHKERRQ(ierr); 1869 for (v = 0, v2 = 0; v < coneSize; ++v) { 1870 PetscBool found = PETSC_FALSE; 1871 1872 for (f = 0; f < faceSize; ++f) { 1873 if (face[f] == cone[v]) { 1874 found = PETSC_TRUE; break; 1875 } 1876 } 1877 if (found) { 1878 indices[v2] = v; 1879 origVertices[v2] = cone[v]; 1880 ++v2; 1881 } else { 1882 oppositeVertex = v; 1883 } 1884 } 1885 ierr = DMPlexGetFaceOrientation(dm, cell, numCorners, indices, oppositeVertex, origVertices, faceVertices, posOriented);CHKERRQ(ierr); 1886 PetscFunctionReturn(0); 1887 } 1888 1889 #undef __FUNCT__ 1890 #define __FUNCT__ "DMPlexInsertFace_Internal" 1891 /* 1892 DMPlexInsertFace_Internal - Puts a face into the mesh 1893 1894 Not collective 1895 1896 Input Parameters: 1897 + dm - The DMPlex 1898 . numFaceVertex - The number of vertices in the face 1899 . faceVertices - The vertices in the face for dm 1900 . subfaceVertices - The vertices in the face for subdm 1901 . numCorners - The number of vertices in the cell 1902 . cell - A cell in dm containing the face 1903 . subcell - A cell in subdm containing the face 1904 . firstFace - First face in the mesh 1905 - newFacePoint - Next face in the mesh 1906 1907 Output Parameters: 1908 . newFacePoint - Contains next face point number on input, updated on output 1909 1910 Level: developer 1911 */ 1912 static PetscErrorCode DMPlexInsertFace_Internal(DM dm, DM subdm, PetscInt numFaceVertices, const PetscInt faceVertices[], const PetscInt subfaceVertices[], PetscInt numCorners, PetscInt cell, PetscInt subcell, PetscInt firstFace, PetscInt *newFacePoint) 1913 { 1914 MPI_Comm comm; 1915 DM_Plex *submesh = (DM_Plex*) subdm->data; 1916 const PetscInt *faces; 1917 PetscInt numFaces, coneSize; 1918 PetscErrorCode ierr; 1919 1920 PetscFunctionBegin; 1921 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 1922 ierr = DMPlexGetConeSize(subdm, subcell, &coneSize);CHKERRQ(ierr); 1923 if (coneSize != 1) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "Cone size of cell %d is %d != 1", cell, coneSize); 1924 #if 0 1925 /* Cannot use this because support() has not been constructed yet */ 1926 ierr = DMPlexGetJoin(subdm, numFaceVertices, subfaceVertices, &numFaces, &faces);CHKERRQ(ierr); 1927 #else 1928 { 1929 PetscInt f; 1930 1931 numFaces = 0; 1932 ierr = DMGetWorkArray(subdm, 1, PETSC_INT, (void **) &faces);CHKERRQ(ierr); 1933 for (f = firstFace; f < *newFacePoint; ++f) { 1934 PetscInt dof, off, d; 1935 1936 ierr = PetscSectionGetDof(submesh->coneSection, f, &dof);CHKERRQ(ierr); 1937 ierr = PetscSectionGetOffset(submesh->coneSection, f, &off);CHKERRQ(ierr); 1938 /* Yes, I know this is quadratic, but I expect the sizes to be <5 */ 1939 for (d = 0; d < dof; ++d) { 1940 const PetscInt p = submesh->cones[off+d]; 1941 PetscInt v; 1942 1943 for (v = 0; v < numFaceVertices; ++v) { 1944 if (subfaceVertices[v] == p) break; 1945 } 1946 if (v == numFaceVertices) break; 1947 } 1948 if (d == dof) { 1949 numFaces = 1; 1950 ((PetscInt*) faces)[0] = f; 1951 } 1952 } 1953 } 1954 #endif 1955 if (numFaces > 1) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Vertex set had %d faces, not one", numFaces); 1956 else if (numFaces == 1) { 1957 /* Add the other cell neighbor for this face */ 1958 ierr = DMPlexSetCone(subdm, subcell, faces);CHKERRQ(ierr); 1959 } else { 1960 PetscInt *indices, *origVertices, *orientedVertices, *orientedSubVertices, v, ov; 1961 PetscBool posOriented; 1962 1963 ierr = DMGetWorkArray(subdm, 4*numFaceVertices * sizeof(PetscInt), PETSC_INT, &orientedVertices);CHKERRQ(ierr); 1964 origVertices = &orientedVertices[numFaceVertices]; 1965 indices = &orientedVertices[numFaceVertices*2]; 1966 orientedSubVertices = &orientedVertices[numFaceVertices*3]; 1967 ierr = DMPlexGetOrientedFace(dm, cell, numFaceVertices, faceVertices, numCorners, indices, origVertices, orientedVertices, &posOriented);CHKERRQ(ierr); 1968 /* TODO: I know that routine should return a permutation, not the indices */ 1969 for (v = 0; v < numFaceVertices; ++v) { 1970 const PetscInt vertex = faceVertices[v], subvertex = subfaceVertices[v]; 1971 for (ov = 0; ov < numFaceVertices; ++ov) { 1972 if (orientedVertices[ov] == vertex) { 1973 orientedSubVertices[ov] = subvertex; 1974 break; 1975 } 1976 } 1977 if (ov == numFaceVertices) SETERRQ1(comm, PETSC_ERR_PLIB, "Could not find face vertex %d in orientated set", vertex); 1978 } 1979 ierr = DMPlexSetCone(subdm, *newFacePoint, orientedSubVertices);CHKERRQ(ierr); 1980 ierr = DMPlexSetCone(subdm, subcell, newFacePoint);CHKERRQ(ierr); 1981 ierr = DMRestoreWorkArray(subdm, 4*numFaceVertices * sizeof(PetscInt), PETSC_INT, &orientedVertices);CHKERRQ(ierr); 1982 ++(*newFacePoint); 1983 } 1984 #if 0 1985 ierr = DMPlexRestoreJoin(subdm, numFaceVertices, subfaceVertices, &numFaces, &faces);CHKERRQ(ierr); 1986 #else 1987 ierr = DMRestoreWorkArray(subdm, 1, PETSC_INT, (void **) &faces);CHKERRQ(ierr); 1988 #endif 1989 PetscFunctionReturn(0); 1990 } 1991 1992 #undef __FUNCT__ 1993 #define __FUNCT__ "DMPlexCreateSubmesh_Uninterpolated" 1994 static PetscErrorCode DMPlexCreateSubmesh_Uninterpolated(DM dm, DMLabel vertexLabel, PetscInt value, DM subdm) 1995 { 1996 MPI_Comm comm; 1997 DMLabel subpointMap; 1998 IS subvertexIS, subcellIS; 1999 const PetscInt *subVertices, *subCells; 2000 PetscInt numSubVertices, firstSubVertex, numSubCells; 2001 PetscInt *subface, maxConeSize, numSubFaces = 0, firstSubFace, newFacePoint, nFV = 0; 2002 PetscInt vStart, vEnd, c, f; 2003 PetscErrorCode ierr; 2004 2005 PetscFunctionBegin; 2006 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 2007 /* Create subpointMap which marks the submesh */ 2008 ierr = DMLabelCreate("subpoint_map", &subpointMap);CHKERRQ(ierr); 2009 ierr = DMPlexSetSubpointMap(subdm, subpointMap);CHKERRQ(ierr); 2010 ierr = DMLabelDestroy(&subpointMap);CHKERRQ(ierr); 2011 if (vertexLabel) {ierr = DMPlexMarkSubmesh_Uninterpolated(dm, vertexLabel, value, subpointMap, &numSubFaces, &nFV, subdm);CHKERRQ(ierr);} 2012 /* Setup chart */ 2013 ierr = DMLabelGetStratumSize(subpointMap, 0, &numSubVertices);CHKERRQ(ierr); 2014 ierr = DMLabelGetStratumSize(subpointMap, 2, &numSubCells);CHKERRQ(ierr); 2015 ierr = DMPlexSetChart(subdm, 0, numSubCells+numSubFaces+numSubVertices);CHKERRQ(ierr); 2016 ierr = DMPlexSetVTKCellHeight(subdm, 1);CHKERRQ(ierr); 2017 /* Set cone sizes */ 2018 firstSubVertex = numSubCells; 2019 firstSubFace = numSubCells+numSubVertices; 2020 newFacePoint = firstSubFace; 2021 ierr = DMLabelGetStratumIS(subpointMap, 0, &subvertexIS);CHKERRQ(ierr); 2022 if (subvertexIS) {ierr = ISGetIndices(subvertexIS, &subVertices);CHKERRQ(ierr);} 2023 ierr = DMLabelGetStratumIS(subpointMap, 2, &subcellIS);CHKERRQ(ierr); 2024 if (subcellIS) {ierr = ISGetIndices(subcellIS, &subCells);CHKERRQ(ierr);} 2025 for (c = 0; c < numSubCells; ++c) { 2026 ierr = DMPlexSetConeSize(subdm, c, 1);CHKERRQ(ierr); 2027 } 2028 for (f = firstSubFace; f < firstSubFace+numSubFaces; ++f) { 2029 ierr = DMPlexSetConeSize(subdm, f, nFV);CHKERRQ(ierr); 2030 } 2031 ierr = DMSetUp(subdm);CHKERRQ(ierr); 2032 /* Create face cones */ 2033 ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 2034 ierr = DMPlexGetMaxSizes(dm, &maxConeSize, NULL);CHKERRQ(ierr); 2035 ierr = DMGetWorkArray(subdm, maxConeSize, PETSC_INT, (void**) &subface);CHKERRQ(ierr); 2036 for (c = 0; c < numSubCells; ++c) { 2037 const PetscInt cell = subCells[c]; 2038 const PetscInt subcell = c; 2039 PetscInt *closure = NULL; 2040 PetscInt closureSize, cl, numCorners = 0, faceSize = 0; 2041 2042 ierr = DMPlexGetTransitiveClosure(dm, cell, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 2043 for (cl = 0; cl < closureSize*2; cl += 2) { 2044 const PetscInt point = closure[cl]; 2045 PetscInt subVertex; 2046 2047 if ((point >= vStart) && (point < vEnd)) { 2048 ++numCorners; 2049 ierr = PetscFindInt(point, numSubVertices, subVertices, &subVertex);CHKERRQ(ierr); 2050 if (subVertex >= 0) { 2051 closure[faceSize] = point; 2052 subface[faceSize] = firstSubVertex+subVertex; 2053 ++faceSize; 2054 } 2055 } 2056 } 2057 if (faceSize > nFV) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Invalid submesh: Too many vertices %d of an element on the surface", faceSize); 2058 if (faceSize == nFV) { 2059 ierr = DMPlexInsertFace_Internal(dm, subdm, faceSize, closure, subface, numCorners, cell, subcell, firstSubFace, &newFacePoint);CHKERRQ(ierr); 2060 } 2061 ierr = DMPlexRestoreTransitiveClosure(dm, cell, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 2062 } 2063 ierr = DMRestoreWorkArray(subdm, maxConeSize, PETSC_INT, (void**) &subface);CHKERRQ(ierr); 2064 ierr = DMPlexSymmetrize(subdm);CHKERRQ(ierr); 2065 ierr = DMPlexStratify(subdm);CHKERRQ(ierr); 2066 /* Build coordinates */ 2067 { 2068 PetscSection coordSection, subCoordSection; 2069 Vec coordinates, subCoordinates; 2070 PetscScalar *coords, *subCoords; 2071 PetscInt numComp, coordSize, v; 2072 2073 ierr = DMPlexGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 2074 ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr); 2075 ierr = DMPlexGetCoordinateSection(subdm, &subCoordSection);CHKERRQ(ierr); 2076 ierr = PetscSectionSetNumFields(subCoordSection, 1);CHKERRQ(ierr); 2077 ierr = PetscSectionGetFieldComponents(coordSection, 0, &numComp);CHKERRQ(ierr); 2078 ierr = PetscSectionSetFieldComponents(subCoordSection, 0, numComp);CHKERRQ(ierr); 2079 ierr = PetscSectionSetChart(subCoordSection, firstSubVertex, firstSubVertex+numSubVertices);CHKERRQ(ierr); 2080 for (v = 0; v < numSubVertices; ++v) { 2081 const PetscInt vertex = subVertices[v]; 2082 const PetscInt subvertex = firstSubVertex+v; 2083 PetscInt dof; 2084 2085 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2086 ierr = PetscSectionSetDof(subCoordSection, subvertex, dof);CHKERRQ(ierr); 2087 ierr = PetscSectionSetFieldDof(subCoordSection, subvertex, 0, dof);CHKERRQ(ierr); 2088 } 2089 ierr = PetscSectionSetUp(subCoordSection);CHKERRQ(ierr); 2090 ierr = PetscSectionGetStorageSize(subCoordSection, &coordSize);CHKERRQ(ierr); 2091 ierr = VecCreate(comm, &subCoordinates);CHKERRQ(ierr); 2092 ierr = VecSetSizes(subCoordinates, coordSize, PETSC_DETERMINE);CHKERRQ(ierr); 2093 ierr = VecSetType(subCoordinates,dm->vectype);CHKERRQ(ierr); 2094 if (coordSize) { 2095 ierr = VecGetArray(coordinates, &coords);CHKERRQ(ierr); 2096 ierr = VecGetArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2097 for (v = 0; v < numSubVertices; ++v) { 2098 const PetscInt vertex = subVertices[v]; 2099 const PetscInt subvertex = firstSubVertex+v; 2100 PetscInt dof, off, sdof, soff, d; 2101 2102 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2103 ierr = PetscSectionGetOffset(coordSection, vertex, &off);CHKERRQ(ierr); 2104 ierr = PetscSectionGetDof(subCoordSection, subvertex, &sdof);CHKERRQ(ierr); 2105 ierr = PetscSectionGetOffset(subCoordSection, subvertex, &soff);CHKERRQ(ierr); 2106 if (dof != sdof) SETERRQ4(comm, PETSC_ERR_PLIB, "Coordinate dimension %d on subvertex %d, vertex %d should be %d", sdof, subvertex, vertex, dof); 2107 for (d = 0; d < dof; ++d) subCoords[soff+d] = coords[off+d]; 2108 } 2109 ierr = VecRestoreArray(coordinates, &coords);CHKERRQ(ierr); 2110 ierr = VecRestoreArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2111 } 2112 ierr = DMSetCoordinatesLocal(subdm, subCoordinates);CHKERRQ(ierr); 2113 ierr = VecDestroy(&subCoordinates);CHKERRQ(ierr); 2114 } 2115 /* Cleanup */ 2116 if (subvertexIS) {ierr = ISRestoreIndices(subvertexIS, &subVertices);CHKERRQ(ierr);} 2117 ierr = ISDestroy(&subvertexIS);CHKERRQ(ierr); 2118 if (subcellIS) {ierr = ISRestoreIndices(subcellIS, &subCells);CHKERRQ(ierr);} 2119 ierr = ISDestroy(&subcellIS);CHKERRQ(ierr); 2120 PetscFunctionReturn(0); 2121 } 2122 2123 #undef __FUNCT__ 2124 #define __FUNCT__ "DMPlexCreateSubmesh_Interpolated" 2125 static PetscErrorCode DMPlexCreateSubmesh_Interpolated(DM dm, DMLabel vertexLabel, PetscInt value, DM subdm) 2126 { 2127 MPI_Comm comm; 2128 DMLabel subpointMap; 2129 IS *subpointIS; 2130 const PetscInt **subpoints; 2131 PetscInt *numSubPoints, *firstSubPoint, *coneNew, *coneONew; 2132 PetscInt totSubPoints = 0, maxConeSize, dim, p, d, v; 2133 PetscErrorCode ierr; 2134 2135 PetscFunctionBegin; 2136 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 2137 /* Create subpointMap which marks the submesh */ 2138 ierr = DMLabelCreate("subpoint_map", &subpointMap);CHKERRQ(ierr); 2139 ierr = DMPlexSetSubpointMap(subdm, subpointMap);CHKERRQ(ierr); 2140 ierr = DMLabelDestroy(&subpointMap);CHKERRQ(ierr); 2141 if (vertexLabel) {ierr = DMPlexMarkSubmesh_Interpolated(dm, vertexLabel, value, subpointMap, subdm);CHKERRQ(ierr);} 2142 /* Setup chart */ 2143 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 2144 ierr = PetscMalloc4(dim+1,PetscInt,&numSubPoints,dim+1,PetscInt,&firstSubPoint,dim+1,IS,&subpointIS,dim+1,const PetscInt *,&subpoints);CHKERRQ(ierr); 2145 for (d = 0; d <= dim; ++d) { 2146 ierr = DMLabelGetStratumSize(subpointMap, d, &numSubPoints[d]);CHKERRQ(ierr); 2147 totSubPoints += numSubPoints[d]; 2148 } 2149 ierr = DMPlexSetChart(subdm, 0, totSubPoints);CHKERRQ(ierr); 2150 ierr = DMPlexSetVTKCellHeight(subdm, 1);CHKERRQ(ierr); 2151 /* Set cone sizes */ 2152 firstSubPoint[dim] = 0; 2153 firstSubPoint[0] = firstSubPoint[dim] + numSubPoints[dim]; 2154 if (dim > 1) {firstSubPoint[dim-1] = firstSubPoint[0] + numSubPoints[0];} 2155 if (dim > 2) {firstSubPoint[dim-2] = firstSubPoint[dim-1] + numSubPoints[dim-1];} 2156 for (d = 0; d <= dim; ++d) { 2157 ierr = DMLabelGetStratumIS(subpointMap, d, &subpointIS[d]);CHKERRQ(ierr); 2158 ierr = ISGetIndices(subpointIS[d], &subpoints[d]);CHKERRQ(ierr); 2159 } 2160 for (d = 0; d <= dim; ++d) { 2161 for (p = 0; p < numSubPoints[d]; ++p) { 2162 const PetscInt point = subpoints[d][p]; 2163 const PetscInt subpoint = firstSubPoint[d] + p; 2164 const PetscInt *cone; 2165 PetscInt coneSize, coneSizeNew, c, val; 2166 2167 ierr = DMPlexGetConeSize(dm, point, &coneSize);CHKERRQ(ierr); 2168 ierr = DMPlexSetConeSize(subdm, subpoint, coneSize);CHKERRQ(ierr); 2169 if (d == dim) { 2170 ierr = DMPlexGetCone(dm, point, &cone);CHKERRQ(ierr); 2171 for (c = 0, coneSizeNew = 0; c < coneSize; ++c) { 2172 ierr = DMLabelGetValue(subpointMap, cone[c], &val);CHKERRQ(ierr); 2173 if (val >= 0) coneSizeNew++; 2174 } 2175 ierr = DMPlexSetConeSize(subdm, subpoint, coneSizeNew);CHKERRQ(ierr); 2176 } 2177 } 2178 } 2179 ierr = DMSetUp(subdm);CHKERRQ(ierr); 2180 /* Set cones */ 2181 ierr = DMPlexGetMaxSizes(dm, &maxConeSize, NULL);CHKERRQ(ierr); 2182 ierr = PetscMalloc2(maxConeSize,PetscInt,&coneNew,maxConeSize,PetscInt,&coneONew);CHKERRQ(ierr); 2183 for (d = 0; d <= dim; ++d) { 2184 for (p = 0; p < numSubPoints[d]; ++p) { 2185 const PetscInt point = subpoints[d][p]; 2186 const PetscInt subpoint = firstSubPoint[d] + p; 2187 const PetscInt *cone, *ornt; 2188 PetscInt coneSize, subconeSize, coneSizeNew, c, subc; 2189 2190 ierr = DMPlexGetConeSize(dm, point, &coneSize);CHKERRQ(ierr); 2191 ierr = DMPlexGetConeSize(subdm, subpoint, &subconeSize);CHKERRQ(ierr); 2192 ierr = DMPlexGetCone(dm, point, &cone);CHKERRQ(ierr); 2193 ierr = DMPlexGetConeOrientation(dm, point, &ornt);CHKERRQ(ierr); 2194 for (c = 0, coneSizeNew = 0; c < coneSize; ++c) { 2195 ierr = PetscFindInt(cone[c], numSubPoints[d-1], subpoints[d-1], &subc);CHKERRQ(ierr); 2196 if (subc >= 0) { 2197 coneNew[coneSizeNew] = firstSubPoint[d-1] + subc; 2198 coneONew[coneSizeNew] = ornt[c]; 2199 ++coneSizeNew; 2200 } 2201 } 2202 if (coneSizeNew != subconeSize) SETERRQ2(comm, PETSC_ERR_PLIB, "Number of cone points located %d does not match subcone size %d", coneSizeNew, subconeSize); 2203 ierr = DMPlexSetCone(subdm, subpoint, coneNew);CHKERRQ(ierr); 2204 ierr = DMPlexSetConeOrientation(subdm, subpoint, coneONew);CHKERRQ(ierr); 2205 } 2206 } 2207 ierr = PetscFree2(coneNew,coneONew);CHKERRQ(ierr); 2208 ierr = DMPlexSymmetrize(subdm);CHKERRQ(ierr); 2209 ierr = DMPlexStratify(subdm);CHKERRQ(ierr); 2210 /* Build coordinates */ 2211 { 2212 PetscSection coordSection, subCoordSection; 2213 Vec coordinates, subCoordinates; 2214 PetscScalar *coords, *subCoords; 2215 PetscInt numComp, coordSize; 2216 2217 ierr = DMPlexGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 2218 ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr); 2219 ierr = DMPlexGetCoordinateSection(subdm, &subCoordSection);CHKERRQ(ierr); 2220 ierr = PetscSectionSetNumFields(subCoordSection, 1);CHKERRQ(ierr); 2221 ierr = PetscSectionGetFieldComponents(coordSection, 0, &numComp);CHKERRQ(ierr); 2222 ierr = PetscSectionSetFieldComponents(subCoordSection, 0, numComp);CHKERRQ(ierr); 2223 ierr = PetscSectionSetChart(subCoordSection, firstSubPoint[0], firstSubPoint[0]+numSubPoints[0]);CHKERRQ(ierr); 2224 for (v = 0; v < numSubPoints[0]; ++v) { 2225 const PetscInt vertex = subpoints[0][v]; 2226 const PetscInt subvertex = firstSubPoint[0]+v; 2227 PetscInt dof; 2228 2229 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2230 ierr = PetscSectionSetDof(subCoordSection, subvertex, dof);CHKERRQ(ierr); 2231 ierr = PetscSectionSetFieldDof(subCoordSection, subvertex, 0, dof);CHKERRQ(ierr); 2232 } 2233 ierr = PetscSectionSetUp(subCoordSection);CHKERRQ(ierr); 2234 ierr = PetscSectionGetStorageSize(subCoordSection, &coordSize);CHKERRQ(ierr); 2235 ierr = VecCreate(comm, &subCoordinates);CHKERRQ(ierr); 2236 ierr = VecSetSizes(subCoordinates, coordSize, PETSC_DETERMINE);CHKERRQ(ierr); 2237 ierr = VecSetType(subCoordinates,dm->vectype);CHKERRQ(ierr); 2238 ierr = VecGetArray(coordinates, &coords);CHKERRQ(ierr); 2239 ierr = VecGetArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2240 for (v = 0; v < numSubPoints[0]; ++v) { 2241 const PetscInt vertex = subpoints[0][v]; 2242 const PetscInt subvertex = firstSubPoint[0]+v; 2243 PetscInt dof, off, sdof, soff, d; 2244 2245 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2246 ierr = PetscSectionGetOffset(coordSection, vertex, &off);CHKERRQ(ierr); 2247 ierr = PetscSectionGetDof(subCoordSection, subvertex, &sdof);CHKERRQ(ierr); 2248 ierr = PetscSectionGetOffset(subCoordSection, subvertex, &soff);CHKERRQ(ierr); 2249 if (dof != sdof) SETERRQ4(comm, PETSC_ERR_PLIB, "Coordinate dimension %d on subvertex %d, vertex %d should be %d", sdof, subvertex, vertex, dof); 2250 for (d = 0; d < dof; ++d) subCoords[soff+d] = coords[off+d]; 2251 } 2252 ierr = VecRestoreArray(coordinates, &coords);CHKERRQ(ierr); 2253 ierr = VecRestoreArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2254 ierr = DMSetCoordinatesLocal(subdm, subCoordinates);CHKERRQ(ierr); 2255 ierr = VecDestroy(&subCoordinates);CHKERRQ(ierr); 2256 } 2257 /* Cleanup */ 2258 for (d = 0; d <= dim; ++d) { 2259 ierr = ISRestoreIndices(subpointIS[d], &subpoints[d]);CHKERRQ(ierr); 2260 ierr = ISDestroy(&subpointIS[d]);CHKERRQ(ierr); 2261 } 2262 ierr = PetscFree4(numSubPoints,firstSubPoint,subpointIS,subpoints);CHKERRQ(ierr); 2263 PetscFunctionReturn(0); 2264 } 2265 2266 #undef __FUNCT__ 2267 #define __FUNCT__ "DMPlexCreateSubmesh" 2268 /*@C 2269 DMPlexCreateSubmesh - Extract a hypersurface from the mesh using vertices defined by a label 2270 2271 Input Parameters: 2272 + dm - The original mesh 2273 . vertexLabel - The DMLabel marking vertices contained in the surface 2274 - value - The label value to use 2275 2276 Output Parameter: 2277 . subdm - The surface mesh 2278 2279 Note: This function produces a DMLabel mapping original points in the submesh to their depth. This can be obtained using DMPlexGetSubpointMap(). 2280 2281 Level: developer 2282 2283 .seealso: DMPlexGetSubpointMap(), DMPlexGetLabel(), DMLabelSetValue() 2284 @*/ 2285 PetscErrorCode DMPlexCreateSubmesh(DM dm, DMLabel vertexLabel, PetscInt value, DM *subdm) 2286 { 2287 PetscInt dim, depth; 2288 PetscErrorCode ierr; 2289 2290 PetscFunctionBegin; 2291 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 2292 PetscValidPointer(subdm, 3); 2293 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 2294 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 2295 ierr = DMCreate(PetscObjectComm((PetscObject)dm), subdm);CHKERRQ(ierr); 2296 ierr = DMSetType(*subdm, DMPLEX);CHKERRQ(ierr); 2297 ierr = DMPlexSetDimension(*subdm, dim-1);CHKERRQ(ierr); 2298 if (depth == dim) { 2299 ierr = DMPlexCreateSubmesh_Interpolated(dm, vertexLabel, value, *subdm);CHKERRQ(ierr); 2300 } else { 2301 ierr = DMPlexCreateSubmesh_Uninterpolated(dm, vertexLabel, value, *subdm);CHKERRQ(ierr); 2302 } 2303 PetscFunctionReturn(0); 2304 } 2305 2306 #undef __FUNCT__ 2307 #define __FUNCT__ "DMPlexFilterPoint_Internal" 2308 PETSC_STATIC_INLINE PetscInt DMPlexFilterPoint_Internal(PetscInt point, PetscInt firstSubPoint, PetscInt numSubPoints, const PetscInt subPoints[]) 2309 { 2310 PetscInt subPoint; 2311 PetscErrorCode ierr; 2312 2313 ierr = PetscFindInt(point, numSubPoints, subPoints, &subPoint); if (ierr < 0) return ierr; 2314 return subPoint < 0 ? subPoint : firstSubPoint+subPoint; 2315 } 2316 2317 #undef __FUNCT__ 2318 #define __FUNCT__ "DMPlexCreateCohesiveSubmesh_Uninterpolated" 2319 static PetscErrorCode DMPlexCreateCohesiveSubmesh_Uninterpolated(DM dm, PetscBool hasLagrange, const char label[], PetscInt value, DM subdm) 2320 { 2321 MPI_Comm comm; 2322 DMLabel subpointMap; 2323 IS subvertexIS; 2324 const PetscInt *subVertices; 2325 PetscInt numSubVertices, firstSubVertex, numSubCells, *subCells = NULL; 2326 PetscInt *subface, maxConeSize, numSubFaces, firstSubFace, newFacePoint, nFV; 2327 PetscInt cMax, c, f; 2328 PetscErrorCode ierr; 2329 2330 PetscFunctionBegin; 2331 ierr = PetscObjectGetComm((PetscObject)dm, &comm);CHKERRQ(ierr); 2332 /* Create subpointMap which marks the submesh */ 2333 ierr = DMLabelCreate("subpoint_map", &subpointMap);CHKERRQ(ierr); 2334 ierr = DMPlexSetSubpointMap(subdm, subpointMap);CHKERRQ(ierr); 2335 ierr = DMLabelDestroy(&subpointMap);CHKERRQ(ierr); 2336 ierr = DMPlexMarkCohesiveSubmesh_Uninterpolated(dm, hasLagrange, label, value, subpointMap, &numSubFaces, &nFV, &subCells, subdm);CHKERRQ(ierr); 2337 /* Setup chart */ 2338 ierr = DMLabelGetStratumSize(subpointMap, 0, &numSubVertices);CHKERRQ(ierr); 2339 ierr = DMLabelGetStratumSize(subpointMap, 2, &numSubCells);CHKERRQ(ierr); 2340 ierr = DMPlexSetChart(subdm, 0, numSubCells+numSubFaces+numSubVertices);CHKERRQ(ierr); 2341 ierr = DMPlexSetVTKCellHeight(subdm, 1);CHKERRQ(ierr); 2342 /* Set cone sizes */ 2343 firstSubVertex = numSubCells; 2344 firstSubFace = numSubCells+numSubVertices; 2345 newFacePoint = firstSubFace; 2346 ierr = DMLabelGetStratumIS(subpointMap, 0, &subvertexIS);CHKERRQ(ierr); 2347 if (subvertexIS) {ierr = ISGetIndices(subvertexIS, &subVertices);CHKERRQ(ierr);} 2348 for (c = 0; c < numSubCells; ++c) { 2349 ierr = DMPlexSetConeSize(subdm, c, 1);CHKERRQ(ierr); 2350 } 2351 for (f = firstSubFace; f < firstSubFace+numSubFaces; ++f) { 2352 ierr = DMPlexSetConeSize(subdm, f, nFV);CHKERRQ(ierr); 2353 } 2354 ierr = DMSetUp(subdm);CHKERRQ(ierr); 2355 /* Create face cones */ 2356 ierr = DMPlexGetMaxSizes(dm, &maxConeSize, NULL);CHKERRQ(ierr); 2357 ierr = DMPlexGetHybridBounds(dm, &cMax, NULL, NULL, NULL);CHKERRQ(ierr); 2358 ierr = DMGetWorkArray(subdm, maxConeSize, PETSC_INT, (void**) &subface);CHKERRQ(ierr); 2359 for (c = 0; c < numSubCells; ++c) { 2360 const PetscInt cell = subCells[c]; 2361 const PetscInt subcell = c; 2362 const PetscInt *cone, *cells; 2363 PetscInt numCells, subVertex, p, v; 2364 2365 if (cell < cMax) continue; 2366 ierr = DMPlexGetCone(dm, cell, &cone);CHKERRQ(ierr); 2367 for (v = 0; v < nFV; ++v) { 2368 ierr = PetscFindInt(cone[v], numSubVertices, subVertices, &subVertex);CHKERRQ(ierr); 2369 subface[v] = firstSubVertex+subVertex; 2370 } 2371 ierr = DMPlexSetCone(subdm, newFacePoint, subface);CHKERRQ(ierr); 2372 ierr = DMPlexSetCone(subdm, subcell, &newFacePoint);CHKERRQ(ierr); 2373 ierr = DMPlexGetJoin(dm, nFV, cone, &numCells, &cells);CHKERRQ(ierr); 2374 /* Not true in parallel 2375 if (numCells != 2) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Cohesive cells should separate two cells"); */ 2376 for (p = 0; p < numCells; ++p) { 2377 PetscInt negsubcell; 2378 2379 if (cells[p] >= cMax) continue; 2380 /* I know this is a crap search */ 2381 for (negsubcell = 0; negsubcell < numSubCells; ++negsubcell) { 2382 if (subCells[negsubcell] == cells[p]) break; 2383 } 2384 if (negsubcell == numSubCells) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Could not find negative face neighbor for cohesive cell %d", cell); 2385 ierr = DMPlexSetCone(subdm, negsubcell, &newFacePoint);CHKERRQ(ierr); 2386 } 2387 ierr = DMPlexRestoreJoin(dm, nFV, cone, &numCells, &cells);CHKERRQ(ierr); 2388 ++newFacePoint; 2389 } 2390 ierr = DMRestoreWorkArray(subdm, maxConeSize, PETSC_INT, (void**) &subface);CHKERRQ(ierr); 2391 ierr = DMPlexSymmetrize(subdm);CHKERRQ(ierr); 2392 ierr = DMPlexStratify(subdm);CHKERRQ(ierr); 2393 /* Build coordinates */ 2394 { 2395 PetscSection coordSection, subCoordSection; 2396 Vec coordinates, subCoordinates; 2397 PetscScalar *coords, *subCoords; 2398 PetscInt numComp, coordSize, v; 2399 2400 ierr = DMPlexGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 2401 ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr); 2402 ierr = DMPlexGetCoordinateSection(subdm, &subCoordSection);CHKERRQ(ierr); 2403 ierr = PetscSectionSetNumFields(subCoordSection, 1);CHKERRQ(ierr); 2404 ierr = PetscSectionGetFieldComponents(coordSection, 0, &numComp);CHKERRQ(ierr); 2405 ierr = PetscSectionSetFieldComponents(subCoordSection, 0, numComp);CHKERRQ(ierr); 2406 ierr = PetscSectionSetChart(subCoordSection, firstSubVertex, firstSubVertex+numSubVertices);CHKERRQ(ierr); 2407 for (v = 0; v < numSubVertices; ++v) { 2408 const PetscInt vertex = subVertices[v]; 2409 const PetscInt subvertex = firstSubVertex+v; 2410 PetscInt dof; 2411 2412 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2413 ierr = PetscSectionSetDof(subCoordSection, subvertex, dof);CHKERRQ(ierr); 2414 ierr = PetscSectionSetFieldDof(subCoordSection, subvertex, 0, dof);CHKERRQ(ierr); 2415 } 2416 ierr = PetscSectionSetUp(subCoordSection);CHKERRQ(ierr); 2417 ierr = PetscSectionGetStorageSize(subCoordSection, &coordSize);CHKERRQ(ierr); 2418 ierr = VecCreate(comm, &subCoordinates);CHKERRQ(ierr); 2419 ierr = VecSetSizes(subCoordinates, coordSize, PETSC_DETERMINE);CHKERRQ(ierr); 2420 ierr = VecSetType(subCoordinates,dm->vectype);CHKERRQ(ierr); 2421 ierr = VecGetArray(coordinates, &coords);CHKERRQ(ierr); 2422 ierr = VecGetArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2423 for (v = 0; v < numSubVertices; ++v) { 2424 const PetscInt vertex = subVertices[v]; 2425 const PetscInt subvertex = firstSubVertex+v; 2426 PetscInt dof, off, sdof, soff, d; 2427 2428 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2429 ierr = PetscSectionGetOffset(coordSection, vertex, &off);CHKERRQ(ierr); 2430 ierr = PetscSectionGetDof(subCoordSection, subvertex, &sdof);CHKERRQ(ierr); 2431 ierr = PetscSectionGetOffset(subCoordSection, subvertex, &soff);CHKERRQ(ierr); 2432 if (dof != sdof) SETERRQ4(comm, PETSC_ERR_PLIB, "Coordinate dimension %d on subvertex %d, vertex %d should be %d", sdof, subvertex, vertex, dof); 2433 for (d = 0; d < dof; ++d) subCoords[soff+d] = coords[off+d]; 2434 } 2435 ierr = VecRestoreArray(coordinates, &coords);CHKERRQ(ierr); 2436 ierr = VecRestoreArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2437 ierr = DMSetCoordinatesLocal(subdm, subCoordinates);CHKERRQ(ierr); 2438 ierr = VecDestroy(&subCoordinates);CHKERRQ(ierr); 2439 } 2440 /* Build SF */ 2441 CHKMEMQ; 2442 { 2443 PetscSF sfPoint, sfPointSub; 2444 const PetscSFNode *remotePoints; 2445 PetscSFNode *sremotePoints, *newLocalPoints, *newOwners; 2446 const PetscInt *localPoints; 2447 PetscInt *slocalPoints; 2448 PetscInt numRoots, numLeaves, numSubRoots = numSubCells+numSubFaces+numSubVertices, numSubLeaves = 0, l, sl, ll, pStart, pEnd, p, vStart, vEnd; 2449 PetscMPIInt rank; 2450 2451 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject) dm), &rank);CHKERRQ(ierr); 2452 ierr = DMGetPointSF(dm, &sfPoint);CHKERRQ(ierr); 2453 ierr = DMGetPointSF(subdm, &sfPointSub);CHKERRQ(ierr); 2454 ierr = DMPlexGetChart(dm, &pStart, &pEnd);CHKERRQ(ierr); 2455 ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 2456 ierr = PetscSFGetGraph(sfPoint, &numRoots, &numLeaves, &localPoints, &remotePoints);CHKERRQ(ierr); 2457 if (numRoots >= 0) { 2458 /* Only vertices should be shared */ 2459 ierr = PetscMalloc2(pEnd-pStart,PetscSFNode,&newLocalPoints,numRoots,PetscSFNode,&newOwners);CHKERRQ(ierr); 2460 for (p = 0; p < pEnd-pStart; ++p) { 2461 newLocalPoints[p].rank = -2; 2462 newLocalPoints[p].index = -2; 2463 } 2464 /* Set subleaves */ 2465 for (l = 0; l < numLeaves; ++l) { 2466 const PetscInt point = localPoints[l]; 2467 const PetscInt subPoint = DMPlexFilterPoint_Internal(point, firstSubVertex, numSubVertices, subVertices); 2468 2469 if ((point < vStart) && (point >= vEnd)) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_ARG_OUTOFRANGE, "Should not be mapping anything but vertices, %d", point); 2470 if (subPoint < 0) continue; 2471 newLocalPoints[point-pStart].rank = rank; 2472 newLocalPoints[point-pStart].index = subPoint; 2473 ++numSubLeaves; 2474 } 2475 /* Must put in owned subpoints */ 2476 for (p = pStart; p < pEnd; ++p) { 2477 const PetscInt subPoint = DMPlexFilterPoint_Internal(p, firstSubVertex, numSubVertices, subVertices); 2478 2479 if (subPoint < 0) { 2480 newOwners[p-pStart].rank = -3; 2481 newOwners[p-pStart].index = -3; 2482 } else { 2483 newOwners[p-pStart].rank = rank; 2484 newOwners[p-pStart].index = subPoint; 2485 } 2486 } 2487 ierr = PetscSFReduceBegin(sfPoint, MPIU_2INT, newLocalPoints, newOwners, MPI_MAXLOC);CHKERRQ(ierr); 2488 ierr = PetscSFReduceEnd(sfPoint, MPIU_2INT, newLocalPoints, newOwners, MPI_MAXLOC);CHKERRQ(ierr); 2489 ierr = PetscSFBcastBegin(sfPoint, MPIU_2INT, newOwners, newLocalPoints);CHKERRQ(ierr); 2490 ierr = PetscSFBcastEnd(sfPoint, MPIU_2INT, newOwners, newLocalPoints);CHKERRQ(ierr); 2491 ierr = PetscMalloc(numSubLeaves * sizeof(PetscInt), &slocalPoints);CHKERRQ(ierr); 2492 ierr = PetscMalloc(numSubLeaves * sizeof(PetscSFNode), &sremotePoints);CHKERRQ(ierr); 2493 for (l = 0, sl = 0, ll = 0; l < numLeaves; ++l) { 2494 const PetscInt point = localPoints[l]; 2495 const PetscInt subPoint = DMPlexFilterPoint_Internal(point, firstSubVertex, numSubVertices, subVertices); 2496 2497 if (subPoint < 0) continue; 2498 if (newLocalPoints[point].rank == rank) {++ll; continue;} 2499 slocalPoints[sl] = subPoint; 2500 sremotePoints[sl].rank = newLocalPoints[point].rank; 2501 sremotePoints[sl].index = newLocalPoints[point].index; 2502 if (sremotePoints[sl].rank < 0) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Invalid remote rank for local point %d", point); 2503 if (sremotePoints[sl].index < 0) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Invalid remote subpoint for local point %d", point); 2504 ++sl; 2505 } 2506 ierr = PetscFree2(newLocalPoints,newOwners);CHKERRQ(ierr); 2507 if (sl + ll != numSubLeaves) SETERRQ3(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Mismatch in number of subleaves %d + %d != %d", sl, ll, numSubLeaves); 2508 ierr = PetscSFSetGraph(sfPointSub, numSubRoots, sl, slocalPoints, PETSC_OWN_POINTER, sremotePoints, PETSC_OWN_POINTER);CHKERRQ(ierr); 2509 } 2510 } 2511 CHKMEMQ; 2512 /* Cleanup */ 2513 if (subvertexIS) {ierr = ISRestoreIndices(subvertexIS, &subVertices);CHKERRQ(ierr);} 2514 ierr = ISDestroy(&subvertexIS);CHKERRQ(ierr); 2515 ierr = PetscFree(subCells);CHKERRQ(ierr); 2516 PetscFunctionReturn(0); 2517 } 2518 2519 #undef __FUNCT__ 2520 #define __FUNCT__ "DMPlexCreateCohesiveSubmesh_Interpolated" 2521 static PetscErrorCode DMPlexCreateCohesiveSubmesh_Interpolated(DM dm, PetscBool hasLagrange, const char label[], PetscInt value, DM subdm) 2522 { 2523 MPI_Comm comm; 2524 DMLabel subpointMap; 2525 IS *subpointIS; 2526 const PetscInt **subpoints; 2527 PetscInt *numSubPoints, *firstSubPoint, *coneNew; 2528 PetscInt totSubPoints = 0, maxConeSize, dim, p, d, v; 2529 PetscErrorCode ierr; 2530 2531 PetscFunctionBegin; 2532 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 2533 /* Create subpointMap which marks the submesh */ 2534 ierr = DMLabelCreate("subpoint_map", &subpointMap);CHKERRQ(ierr); 2535 ierr = DMPlexSetSubpointMap(subdm, subpointMap);CHKERRQ(ierr); 2536 ierr = DMLabelDestroy(&subpointMap);CHKERRQ(ierr); 2537 ierr = DMPlexMarkCohesiveSubmesh_Interpolated(dm, hasLagrange, label, value, subpointMap, subdm);CHKERRQ(ierr); 2538 /* Setup chart */ 2539 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 2540 ierr = PetscMalloc4(dim+1,PetscInt,&numSubPoints,dim+1,PetscInt,&firstSubPoint,dim+1,IS,&subpointIS,dim+1,const PetscInt *,&subpoints);CHKERRQ(ierr); 2541 for (d = 0; d <= dim; ++d) { 2542 ierr = DMLabelGetStratumSize(subpointMap, d, &numSubPoints[d]);CHKERRQ(ierr); 2543 totSubPoints += numSubPoints[d]; 2544 } 2545 ierr = DMPlexSetChart(subdm, 0, totSubPoints);CHKERRQ(ierr); 2546 ierr = DMPlexSetVTKCellHeight(subdm, 1);CHKERRQ(ierr); 2547 /* Set cone sizes */ 2548 firstSubPoint[dim] = 0; 2549 firstSubPoint[0] = firstSubPoint[dim] + numSubPoints[dim]; 2550 if (dim > 1) {firstSubPoint[dim-1] = firstSubPoint[0] + numSubPoints[0];} 2551 if (dim > 2) {firstSubPoint[dim-2] = firstSubPoint[dim-1] + numSubPoints[dim-1];} 2552 for (d = 0; d <= dim; ++d) { 2553 ierr = DMLabelGetStratumIS(subpointMap, d, &subpointIS[d]);CHKERRQ(ierr); 2554 ierr = ISGetIndices(subpointIS[d], &subpoints[d]);CHKERRQ(ierr); 2555 } 2556 for (d = 0; d <= dim; ++d) { 2557 for (p = 0; p < numSubPoints[d]; ++p) { 2558 const PetscInt point = subpoints[d][p]; 2559 const PetscInt subpoint = firstSubPoint[d] + p; 2560 const PetscInt *cone; 2561 PetscInt coneSize, coneSizeNew, c, val; 2562 2563 ierr = DMPlexGetConeSize(dm, point, &coneSize);CHKERRQ(ierr); 2564 ierr = DMPlexSetConeSize(subdm, subpoint, coneSize);CHKERRQ(ierr); 2565 if (d == dim) { 2566 ierr = DMPlexGetCone(dm, point, &cone);CHKERRQ(ierr); 2567 for (c = 0, coneSizeNew = 0; c < coneSize; ++c) { 2568 ierr = DMLabelGetValue(subpointMap, cone[c], &val);CHKERRQ(ierr); 2569 if (val >= 0) coneSizeNew++; 2570 } 2571 ierr = DMPlexSetConeSize(subdm, subpoint, coneSizeNew);CHKERRQ(ierr); 2572 } 2573 } 2574 } 2575 ierr = DMSetUp(subdm);CHKERRQ(ierr); 2576 /* Set cones */ 2577 ierr = DMPlexGetMaxSizes(dm, &maxConeSize, NULL);CHKERRQ(ierr); 2578 ierr = PetscMalloc(maxConeSize * sizeof(PetscInt), &coneNew);CHKERRQ(ierr); 2579 for (d = 0; d <= dim; ++d) { 2580 for (p = 0; p < numSubPoints[d]; ++p) { 2581 const PetscInt point = subpoints[d][p]; 2582 const PetscInt subpoint = firstSubPoint[d] + p; 2583 const PetscInt *cone; 2584 PetscInt coneSize, subconeSize, coneSizeNew, c, subc; 2585 2586 ierr = DMPlexGetConeSize(dm, point, &coneSize);CHKERRQ(ierr); 2587 ierr = DMPlexGetConeSize(subdm, subpoint, &subconeSize);CHKERRQ(ierr); 2588 ierr = DMPlexGetCone(dm, point, &cone);CHKERRQ(ierr); 2589 for (c = 0, coneSizeNew = 0; c < coneSize; ++c) { 2590 ierr = PetscFindInt(cone[c], numSubPoints[d-1], subpoints[d-1], &subc);CHKERRQ(ierr); 2591 if (subc >= 0) coneNew[coneSizeNew++] = firstSubPoint[d-1] + subc; 2592 } 2593 if (coneSizeNew != subconeSize) SETERRQ2(comm, PETSC_ERR_PLIB, "Number of cone points located %d does not match subcone size %d", coneSizeNew, subconeSize); 2594 ierr = DMPlexSetCone(subdm, subpoint, coneNew);CHKERRQ(ierr); 2595 } 2596 } 2597 ierr = PetscFree(coneNew);CHKERRQ(ierr); 2598 ierr = DMPlexSymmetrize(subdm);CHKERRQ(ierr); 2599 ierr = DMPlexStratify(subdm);CHKERRQ(ierr); 2600 /* Build coordinates */ 2601 { 2602 PetscSection coordSection, subCoordSection; 2603 Vec coordinates, subCoordinates; 2604 PetscScalar *coords, *subCoords; 2605 PetscInt numComp, coordSize; 2606 2607 ierr = DMPlexGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 2608 ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr); 2609 ierr = DMPlexGetCoordinateSection(subdm, &subCoordSection);CHKERRQ(ierr); 2610 ierr = PetscSectionSetNumFields(subCoordSection, 1);CHKERRQ(ierr); 2611 ierr = PetscSectionGetFieldComponents(coordSection, 0, &numComp);CHKERRQ(ierr); 2612 ierr = PetscSectionSetFieldComponents(subCoordSection, 0, numComp);CHKERRQ(ierr); 2613 ierr = PetscSectionSetChart(subCoordSection, firstSubPoint[0], firstSubPoint[0]+numSubPoints[0]);CHKERRQ(ierr); 2614 for (v = 0; v < numSubPoints[0]; ++v) { 2615 const PetscInt vertex = subpoints[0][v]; 2616 const PetscInt subvertex = firstSubPoint[0]+v; 2617 PetscInt dof; 2618 2619 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2620 ierr = PetscSectionSetDof(subCoordSection, subvertex, dof);CHKERRQ(ierr); 2621 ierr = PetscSectionSetFieldDof(subCoordSection, subvertex, 0, dof);CHKERRQ(ierr); 2622 } 2623 ierr = PetscSectionSetUp(subCoordSection);CHKERRQ(ierr); 2624 ierr = PetscSectionGetStorageSize(subCoordSection, &coordSize);CHKERRQ(ierr); 2625 ierr = VecCreate(comm, &subCoordinates);CHKERRQ(ierr); 2626 ierr = VecSetSizes(subCoordinates, coordSize, PETSC_DETERMINE);CHKERRQ(ierr); 2627 ierr = VecSetType(subCoordinates,dm->vectype);CHKERRQ(ierr); 2628 ierr = VecGetArray(coordinates, &coords);CHKERRQ(ierr); 2629 ierr = VecGetArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2630 for (v = 0; v < numSubPoints[0]; ++v) { 2631 const PetscInt vertex = subpoints[0][v]; 2632 const PetscInt subvertex = firstSubPoint[0]+v; 2633 PetscInt dof, off, sdof, soff, d; 2634 2635 ierr = PetscSectionGetDof(coordSection, vertex, &dof);CHKERRQ(ierr); 2636 ierr = PetscSectionGetOffset(coordSection, vertex, &off);CHKERRQ(ierr); 2637 ierr = PetscSectionGetDof(subCoordSection, subvertex, &sdof);CHKERRQ(ierr); 2638 ierr = PetscSectionGetOffset(subCoordSection, subvertex, &soff);CHKERRQ(ierr); 2639 if (dof != sdof) SETERRQ4(comm, PETSC_ERR_PLIB, "Coordinate dimension %d on subvertex %d, vertex %d should be %d", sdof, subvertex, vertex, dof); 2640 for (d = 0; d < dof; ++d) subCoords[soff+d] = coords[off+d]; 2641 } 2642 ierr = VecRestoreArray(coordinates, &coords);CHKERRQ(ierr); 2643 ierr = VecRestoreArray(subCoordinates, &subCoords);CHKERRQ(ierr); 2644 ierr = DMSetCoordinatesLocal(subdm, subCoordinates);CHKERRQ(ierr); 2645 ierr = VecDestroy(&subCoordinates);CHKERRQ(ierr); 2646 } 2647 /* Cleanup */ 2648 for (d = 0; d <= dim; ++d) { 2649 ierr = ISRestoreIndices(subpointIS[d], &subpoints[d]);CHKERRQ(ierr); 2650 ierr = ISDestroy(&subpointIS[d]);CHKERRQ(ierr); 2651 } 2652 ierr = PetscFree4(numSubPoints,firstSubPoint,subpointIS,subpoints);CHKERRQ(ierr); 2653 PetscFunctionReturn(0); 2654 } 2655 2656 #undef __FUNCT__ 2657 #define __FUNCT__ "DMPlexCreateCohesiveSubmesh" 2658 /* 2659 DMPlexCreateCohesiveSubmesh - Extract from a mesh with cohesive cells the hypersurface defined by one face of the cells. Optionally, a Label an be given to restrict the cells. 2660 2661 Input Parameters: 2662 + dm - The original mesh 2663 . hasLagrange - The mesh has Lagrange unknowns in the cohesive cells 2664 . label - A label name, or PETSC_NULL 2665 - value - A label value 2666 2667 Output Parameter: 2668 . subdm - The surface mesh 2669 2670 Note: This function produces a DMLabel mapping original points in the submesh to their depth. This can be obtained using DMPlexGetSubpointMap(). 2671 2672 Level: developer 2673 2674 .seealso: DMPlexGetSubpointMap(), DMPlexCreateSubmesh() 2675 */ 2676 PetscErrorCode DMPlexCreateCohesiveSubmesh(DM dm, PetscBool hasLagrange, const char label[], PetscInt value, DM *subdm) 2677 { 2678 PetscInt dim, depth; 2679 PetscErrorCode ierr; 2680 2681 PetscFunctionBegin; 2682 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 2683 PetscValidPointer(subdm, 5); 2684 ierr = DMPlexGetDimension(dm, &dim);CHKERRQ(ierr); 2685 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 2686 ierr = DMCreate(PetscObjectComm((PetscObject)dm), subdm);CHKERRQ(ierr); 2687 ierr = DMSetType(*subdm, DMPLEX);CHKERRQ(ierr); 2688 ierr = DMPlexSetDimension(*subdm, dim-1);CHKERRQ(ierr); 2689 if (depth == dim) { 2690 ierr = DMPlexCreateCohesiveSubmesh_Interpolated(dm, hasLagrange, label, value, *subdm);CHKERRQ(ierr); 2691 } else { 2692 ierr = DMPlexCreateCohesiveSubmesh_Uninterpolated(dm, hasLagrange, label, value, *subdm);CHKERRQ(ierr); 2693 } 2694 PetscFunctionReturn(0); 2695 } 2696 2697 #undef __FUNCT__ 2698 #define __FUNCT__ "DMPlexGetSubpointMap" 2699 /*@ 2700 DMPlexGetSubpointMap - Returns a DMLabel with point dimension as values 2701 2702 Input Parameter: 2703 . dm - The submesh DM 2704 2705 Output Parameter: 2706 . subpointMap - The DMLabel of all the points from the original mesh in this submesh, or NULL if this is not a submesh 2707 2708 Level: developer 2709 2710 .seealso: DMPlexCreateSubmesh(), DMPlexCreateSubpointIS() 2711 @*/ 2712 PetscErrorCode DMPlexGetSubpointMap(DM dm, DMLabel *subpointMap) 2713 { 2714 DM_Plex *mesh = (DM_Plex*) dm->data; 2715 2716 PetscFunctionBegin; 2717 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 2718 PetscValidPointer(subpointMap, 2); 2719 *subpointMap = mesh->subpointMap; 2720 PetscFunctionReturn(0); 2721 } 2722 2723 #undef __FUNCT__ 2724 #define __FUNCT__ "DMPlexSetSubpointMap" 2725 /* Note: Should normally not be called by the user, since it is set in DMPlexCreateSubmesh() */ 2726 PetscErrorCode DMPlexSetSubpointMap(DM dm, DMLabel subpointMap) 2727 { 2728 DM_Plex *mesh = (DM_Plex *) dm->data; 2729 DMLabel tmp; 2730 PetscErrorCode ierr; 2731 2732 PetscFunctionBegin; 2733 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 2734 tmp = mesh->subpointMap; 2735 mesh->subpointMap = subpointMap; 2736 ++mesh->subpointMap->refct; 2737 ierr = DMLabelDestroy(&tmp);CHKERRQ(ierr); 2738 PetscFunctionReturn(0); 2739 } 2740 2741 #undef __FUNCT__ 2742 #define __FUNCT__ "DMPlexCreateSubpointIS" 2743 /*@ 2744 DMPlexCreateSubpointIS - Creates an IS covering the entire subdm chart with the original points as data 2745 2746 Input Parameter: 2747 . dm - The submesh DM 2748 2749 Output Parameter: 2750 . subpointIS - The IS of all the points from the original mesh in this submesh, or NULL if this is not a submesh 2751 2752 Note: This is IS is guaranteed to be sorted by the construction of the submesh 2753 2754 Level: developer 2755 2756 .seealso: DMPlexCreateSubmesh(), DMPlexGetSubpointMap() 2757 @*/ 2758 PetscErrorCode DMPlexCreateSubpointIS(DM dm, IS *subpointIS) 2759 { 2760 MPI_Comm comm; 2761 DMLabel subpointMap; 2762 IS is; 2763 const PetscInt *opoints; 2764 PetscInt *points, *depths; 2765 PetscInt depth, depStart, depEnd, d, pStart, pEnd, p, n, off; 2766 PetscErrorCode ierr; 2767 2768 PetscFunctionBegin; 2769 PetscValidHeaderSpecific(dm, DM_CLASSID, 1); 2770 PetscValidPointer(subpointIS, 2); 2771 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 2772 *subpointIS = NULL; 2773 ierr = DMPlexGetSubpointMap(dm, &subpointMap);CHKERRQ(ierr); 2774 ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr); 2775 if (subpointMap && depth >= 0) { 2776 ierr = DMPlexGetChart(dm, &pStart, &pEnd);CHKERRQ(ierr); 2777 if (pStart) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Submeshes must start the point numbering at 0, not %d", pStart); 2778 ierr = DMGetWorkArray(dm, depth+1, PETSC_INT, &depths);CHKERRQ(ierr); 2779 depths[0] = depth; 2780 depths[1] = 0; 2781 for(d = 2; d <= depth; ++d) {depths[d] = depth+1 - d;} 2782 ierr = PetscMalloc(pEnd * sizeof(PetscInt), &points);CHKERRQ(ierr); 2783 for(d = 0, off = 0; d <= depth; ++d) { 2784 const PetscInt dep = depths[d]; 2785 2786 ierr = DMPlexGetDepthStratum(dm, dep, &depStart, &depEnd);CHKERRQ(ierr); 2787 ierr = DMLabelGetStratumSize(subpointMap, dep, &n);CHKERRQ(ierr); 2788 if (((d < 2) && (depth > 1)) || (d == 1)) { /* Only check vertices and cells for now since the map is broken for others */ 2789 if (n != depEnd-depStart) SETERRQ3(comm, PETSC_ERR_ARG_WRONG, "The number of mapped submesh points %d at depth %d should be %d", n, dep, depEnd-depStart); 2790 } else { 2791 if (!n) { 2792 if (d == 0) { 2793 /* Missing cells */ 2794 for(p = 0; p < depEnd-depStart; ++p, ++off) points[off] = -1; 2795 } else { 2796 /* Missing faces */ 2797 for(p = 0; p < depEnd-depStart; ++p, ++off) points[off] = PETSC_MAX_INT; 2798 } 2799 } 2800 } 2801 if (n) { 2802 ierr = DMLabelGetStratumIS(subpointMap, dep, &is);CHKERRQ(ierr); 2803 ierr = ISGetIndices(is, &opoints);CHKERRQ(ierr); 2804 for(p = 0; p < n; ++p, ++off) points[off] = opoints[p]; 2805 ierr = ISRestoreIndices(is, &opoints);CHKERRQ(ierr); 2806 ierr = ISDestroy(&is);CHKERRQ(ierr); 2807 } 2808 } 2809 ierr = DMRestoreWorkArray(dm, depth+1, PETSC_INT, &depths);CHKERRQ(ierr); 2810 if (off != pEnd) SETERRQ2(comm, PETSC_ERR_ARG_WRONG, "The number of mapped submesh points %d should be %d", off, pEnd); 2811 ierr = ISCreateGeneral(PETSC_COMM_SELF, pEnd, points, PETSC_OWN_POINTER, subpointIS);CHKERRQ(ierr); 2812 } 2813 PetscFunctionReturn(0); 2814 } 2815