Actual source code: plexinterpolate.c
petsc-3.7.1 2016-05-15
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      1: #include <petsc/private/dmpleximpl.h>   /*I      "petscdmplex.h"   I*/
      2: #include <../src/sys/utils/hash.h>

      6: /*
      7:   DMPlexGetFaces_Internal - Gets groups of vertices that correspond to faces for the given cell
      8: */
      9: PetscErrorCode DMPlexGetFaces_Internal(DM dm, PetscInt dim, PetscInt p, PetscInt *numFaces, PetscInt *faceSize, const PetscInt *faces[])
     10: {
     11:   const PetscInt *cone = NULL;
     12:   PetscInt        maxConeSize, maxSupportSize, coneSize;
     13:   PetscErrorCode  ierr;

     17:   DMPlexGetMaxSizes(dm, &maxConeSize, &maxSupportSize);
     18:   DMPlexGetConeSize(dm, p, &coneSize);
     19:   DMPlexGetCone(dm, p, &cone);
     20:   DMPlexGetRawFaces_Internal(dm, dim, coneSize, cone, numFaces, faceSize, faces);
     21:   return(0);
     22: }

     26: /*
     27:   DMPlexRestoreFaces_Internal - Restores the array
     28: */
     29: PetscErrorCode DMPlexRestoreFaces_Internal(DM dm, PetscInt dim, PetscInt p, PetscInt *numFaces, PetscInt *faceSize, const PetscInt *faces[])
     30: {
     31:   PetscErrorCode  ierr;

     34:   DMRestoreWorkArray(dm, 0, PETSC_INT, (void *) faces);
     35:   return(0);
     36: }

     40: /*
     41:   DMPlexGetRawFaces_Internal - Gets groups of vertices that correspond to faces for the given cone
     42: */
     43: PetscErrorCode DMPlexGetRawFaces_Internal(DM dm, PetscInt dim, PetscInt coneSize, const PetscInt cone[], PetscInt *numFaces, PetscInt *faceSize, const PetscInt *faces[])
     44: {
     45:   PetscInt       *facesTmp;
     46:   PetscInt        maxConeSize, maxSupportSize;
     47:   PetscErrorCode  ierr;

     51:   DMPlexGetMaxSizes(dm, &maxConeSize, &maxSupportSize);
     52:   if (faces) {DMGetWorkArray(dm, PetscSqr(PetscMax(maxConeSize, maxSupportSize)), PETSC_INT, &facesTmp);}
     53:   switch (dim) {
     54:   case 1:
     55:     switch (coneSize) {
     56:     case 2:
     57:       if (faces) {
     58:         facesTmp[0] = cone[0]; facesTmp[1] = cone[1];
     59:         *faces = facesTmp;
     60:       }
     61:       if (numFaces) *numFaces         = 2;
     62:       if (faceSize) *faceSize         = 1;
     63:       break;
     64:     default:
     65:       SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_OUTOFRANGE, "Cone size %D not supported for dimension %D", coneSize, dim);
     66:     }
     67:     break;
     68:   case 2:
     69:     switch (coneSize) {
     70:     case 3:
     71:       if (faces) {
     72:         facesTmp[0] = cone[0]; facesTmp[1] = cone[1];
     73:         facesTmp[2] = cone[1]; facesTmp[3] = cone[2];
     74:         facesTmp[4] = cone[2]; facesTmp[5] = cone[0];
     75:         *faces = facesTmp;
     76:       }
     77:       if (numFaces) *numFaces         = 3;
     78:       if (faceSize) *faceSize         = 2;
     79:       break;
     80:     case 4:
     81:       /* Vertices follow right hand rule */
     82:       if (faces) {
     83:         facesTmp[0] = cone[0]; facesTmp[1] = cone[1];
     84:         facesTmp[2] = cone[1]; facesTmp[3] = cone[2];
     85:         facesTmp[4] = cone[2]; facesTmp[5] = cone[3];
     86:         facesTmp[6] = cone[3]; facesTmp[7] = cone[0];
     87:         *faces = facesTmp;
     88:       }
     89:       if (numFaces) *numFaces         = 4;
     90:       if (faceSize) *faceSize         = 2;
     91:       break;
     92:     default:
     93:       SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_OUTOFRANGE, "Cone size %D not supported for dimension %D", coneSize, dim);
     94:     }
     95:     break;
     96:   case 3:
     97:     switch (coneSize) {
     98:     case 3:
     99:       if (faces) {
    100:         facesTmp[0] = cone[0]; facesTmp[1] = cone[1];
    101:         facesTmp[2] = cone[1]; facesTmp[3] = cone[2];
    102:         facesTmp[4] = cone[2]; facesTmp[5] = cone[0];
    103:         *faces = facesTmp;
    104:       }
    105:       if (numFaces) *numFaces         = 3;
    106:       if (faceSize) *faceSize         = 2;
    107:       break;
    108:     case 4:
    109:       /* Vertices of first face follow right hand rule and normal points away from last vertex */
    110:       if (faces) {
    111:         facesTmp[0] = cone[0]; facesTmp[1]  = cone[1]; facesTmp[2]  = cone[2];
    112:         facesTmp[3] = cone[0]; facesTmp[4]  = cone[3]; facesTmp[5]  = cone[1];
    113:         facesTmp[6] = cone[0]; facesTmp[7]  = cone[2]; facesTmp[8]  = cone[3];
    114:         facesTmp[9] = cone[2]; facesTmp[10] = cone[1]; facesTmp[11] = cone[3];
    115:         *faces = facesTmp;
    116:       }
    117:       if (numFaces) *numFaces         = 4;
    118:       if (faceSize) *faceSize         = 3;
    119:       break;
    120:     case 8:
    121:       if (faces) {
    122:         facesTmp[0]  = cone[0]; facesTmp[1]  = cone[1]; facesTmp[2]  = cone[2]; facesTmp[3]  = cone[3]; /* Bottom */
    123:         facesTmp[4]  = cone[4]; facesTmp[5]  = cone[5]; facesTmp[6]  = cone[6]; facesTmp[7]  = cone[7]; /* Top */
    124:         facesTmp[8]  = cone[0]; facesTmp[9]  = cone[3]; facesTmp[10] = cone[5]; facesTmp[11] = cone[4]; /* Front */
    125:         facesTmp[12] = cone[2]; facesTmp[13] = cone[1]; facesTmp[14] = cone[7]; facesTmp[15] = cone[6]; /* Back */
    126:         facesTmp[16] = cone[3]; facesTmp[17] = cone[2]; facesTmp[18] = cone[6]; facesTmp[19] = cone[5]; /* Right */
    127:         facesTmp[20] = cone[0]; facesTmp[21] = cone[4]; facesTmp[22] = cone[7]; facesTmp[23] = cone[1]; /* Left */
    128:         *faces = facesTmp;
    129:       }
    130:       if (numFaces) *numFaces         = 6;
    131:       if (faceSize) *faceSize         = 4;
    132:       break;
    133:     default:
    134:       SETERRQ2(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_OUTOFRANGE, "Cone size %D not supported for dimension %D", coneSize, dim);
    135:     }
    136:     break;
    137:   default:
    138:     SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_OUTOFRANGE, "Dimension %D not supported", dim);
    139:   }
    140:   return(0);
    141: }

    145: /* This interpolates faces for cells at some stratum */
    146: static PetscErrorCode DMPlexInterpolateFaces_Internal(DM dm, PetscInt cellDepth, DM idm)
    147: {
    148:   DMLabel        subpointMap;
    149:   PetscHashIJKL  faceTable;
    150:   PetscInt      *pStart, *pEnd;
    151:   PetscInt       cellDim, depth, faceDepth = cellDepth, numPoints = 0, faceSizeAll = 0, face, c, d;

    155:   DMGetDimension(dm, &cellDim);
    156:   /* HACK: I need a better way to determine face dimension, or an alternative to GetFaces() */
    157:   DMPlexGetSubpointMap(dm, &subpointMap);
    158:   if (subpointMap) ++cellDim;
    159:   DMPlexGetDepth(dm, &depth);
    160:   ++depth;
    161:   ++cellDepth;
    162:   cellDim -= depth - cellDepth;
    163:   PetscMalloc2(depth+1,&pStart,depth+1,&pEnd);
    164:   for (d = depth-1; d >= faceDepth; --d) {
    165:     DMPlexGetDepthStratum(dm, d, &pStart[d+1], &pEnd[d+1]);
    166:   }
    167:   DMPlexGetDepthStratum(dm, -1, NULL, &pStart[faceDepth]);
    168:   pEnd[faceDepth] = pStart[faceDepth];
    169:   for (d = faceDepth-1; d >= 0; --d) {
    170:     DMPlexGetDepthStratum(dm, d, &pStart[d], &pEnd[d]);
    171:   }
    172:   if (pEnd[cellDepth] > pStart[cellDepth]) {DMPlexGetFaces_Internal(dm, cellDim, pStart[cellDepth], NULL, &faceSizeAll, NULL);}
    173:   if (faceSizeAll > 4) SETERRQ1(PetscObjectComm((PetscObject) dm), PETSC_ERR_ARG_WRONG, "Do not support interpolation of meshes with faces of %D vertices", faceSizeAll);
    174:   PetscHashIJKLCreate(&faceTable);
    175:   for (c = pStart[cellDepth], face = pStart[faceDepth]; c < pEnd[cellDepth]; ++c) {
    176:     const PetscInt *cellFaces;
    177:     PetscInt        numCellFaces, faceSize, cf;

    179:     DMPlexGetFaces_Internal(dm, cellDim, c, &numCellFaces, &faceSize, &cellFaces);
    180:     if (faceSize != faceSizeAll) SETERRQ3(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Inconsistent face for cell %D of size %D != %D", c, faceSize, faceSizeAll);
    181:     for (cf = 0; cf < numCellFaces; ++cf) {
    182:       const PetscInt   *cellFace = &cellFaces[cf*faceSize];
    183:       PetscHashIJKLKey  key;
    184:       PetscHashIJKLIter missing, iter;

    186:       if (faceSize == 2) {
    187:         key.i = PetscMin(cellFace[0], cellFace[1]);
    188:         key.j = PetscMax(cellFace[0], cellFace[1]);
    189:         key.k = 0;
    190:         key.l = 0;
    191:       } else {
    192:         key.i = cellFace[0]; key.j = cellFace[1]; key.k = cellFace[2]; key.l = faceSize > 3 ? cellFace[3] : 0;
    193:         PetscSortInt(faceSize, (PetscInt *) &key);
    194:       }
    195:       PetscHashIJKLPut(faceTable, key, &missing, &iter);
    196:       if (missing) {PetscHashIJKLSet(faceTable, iter, face++);}
    197:     }
    198:     DMPlexRestoreFaces_Internal(dm, cellDim, c, &numCellFaces, &faceSize, &cellFaces);
    199:   }
    200:   pEnd[faceDepth] = face;
    201:   PetscHashIJKLDestroy(&faceTable);
    202:   /* Count new points */
    203:   for (d = 0; d <= depth; ++d) {
    204:     numPoints += pEnd[d]-pStart[d];
    205:   }
    206:   DMPlexSetChart(idm, 0, numPoints);
    207:   /* Set cone sizes */
    208:   for (d = 0; d <= depth; ++d) {
    209:     PetscInt coneSize, p;

    211:     if (d == faceDepth) {
    212:       for (p = pStart[d]; p < pEnd[d]; ++p) {
    213:         /* I see no way to do this if we admit faces of different shapes */
    214:         DMPlexSetConeSize(idm, p, faceSizeAll);
    215:       }
    216:     } else if (d == cellDepth) {
    217:       for (p = pStart[d]; p < pEnd[d]; ++p) {
    218:         /* Number of cell faces may be different from number of cell vertices*/
    219:         DMPlexGetFaces_Internal(dm, cellDim, p, &coneSize, NULL, NULL);
    220:         DMPlexSetConeSize(idm, p, coneSize);
    221:       }
    222:     } else {
    223:       for (p = pStart[d]; p < pEnd[d]; ++p) {
    224:         DMPlexGetConeSize(dm, p, &coneSize);
    225:         DMPlexSetConeSize(idm, p, coneSize);
    226:       }
    227:     }
    228:   }
    229:   DMSetUp(idm);
    230:   /* Get face cones from subsets of cell vertices */
    231:   if (faceSizeAll > 4) SETERRQ1(PetscObjectComm((PetscObject) dm), PETSC_ERR_ARG_WRONG, "Do not support interpolation of meshes with faces of %D vertices", faceSizeAll);
    232:   PetscHashIJKLCreate(&faceTable);
    233:   for (d = depth; d > cellDepth; --d) {
    234:     const PetscInt *cone;
    235:     PetscInt        p;

    237:     for (p = pStart[d]; p < pEnd[d]; ++p) {
    238:       DMPlexGetCone(dm, p, &cone);
    239:       DMPlexSetCone(idm, p, cone);
    240:       DMPlexGetConeOrientation(dm, p, &cone);
    241:       DMPlexSetConeOrientation(idm, p, cone);
    242:     }
    243:   }
    244:   for (c = pStart[cellDepth], face = pStart[faceDepth]; c < pEnd[cellDepth]; ++c) {
    245:     const PetscInt *cellFaces;
    246:     PetscInt        numCellFaces, faceSize, cf;

    248:     DMPlexGetFaces_Internal(dm, cellDim, c, &numCellFaces, &faceSize, &cellFaces);
    249:     if (faceSize != faceSizeAll) SETERRQ3(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Inconsistent face for cell %D of size %D != %D", c, faceSize, faceSizeAll);
    250:     for (cf = 0; cf < numCellFaces; ++cf) {
    251:       const PetscInt  *cellFace = &cellFaces[cf*faceSize];
    252:       PetscHashIJKLKey key;
    253:       PetscHashIJKLIter missing, iter;

    255:       if (faceSize == 2) {
    256:         key.i = PetscMin(cellFace[0], cellFace[1]);
    257:         key.j = PetscMax(cellFace[0], cellFace[1]);
    258:         key.k = 0;
    259:         key.l = 0;
    260:       } else {
    261:         key.i = cellFace[0]; key.j = cellFace[1]; key.k = cellFace[2]; key.l = faceSize > 3 ? cellFace[3] : 0;
    262:         PetscSortInt(faceSize, (PetscInt *) &key);
    263:       }
    264:       PetscHashIJKLPut(faceTable, key, &missing, &iter);
    265:       if (missing) {
    266:         DMPlexSetCone(idm, face, cellFace);
    267:         PetscHashIJKLSet(faceTable, iter, face);
    268:         DMPlexInsertCone(idm, c, cf, face++);
    269:       } else {
    270:         const PetscInt *cone;
    271:         PetscInt        coneSize, ornt, i, j, f;

    273:         PetscHashIJKLGet(faceTable, iter, &f);
    274:         DMPlexInsertCone(idm, c, cf, f);
    275:         /* Orient face: Do not allow reverse orientation at the first vertex */
    276:         DMPlexGetConeSize(idm, f, &coneSize);
    277:         DMPlexGetCone(idm, f, &cone);
    278:         if (coneSize != faceSize) SETERRQ3(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Invalid number of face vertices %D for face %D should be %D", coneSize, f, faceSize);
    279:         /* - First find the initial vertex */
    280:         for (i = 0; i < faceSize; ++i) if (cellFace[0] == cone[i]) break;
    281:         /* - Try forward comparison */
    282:         for (j = 0; j < faceSize; ++j) if (cellFace[j] != cone[(i+j)%faceSize]) break;
    283:         if (j == faceSize) {
    284:           if ((faceSize == 2) && (i == 1)) ornt = -2;
    285:           else                             ornt = i;
    286:         } else {
    287:           /* - Try backward comparison */
    288:           for (j = 0; j < faceSize; ++j) if (cellFace[j] != cone[(i+faceSize-j)%faceSize]) break;
    289:           if (j == faceSize) {
    290:             if (i == 0) ornt = -faceSize;
    291:             else        ornt = -i;
    292:           } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Could not determine face orientation");
    293:         }
    294:         DMPlexInsertConeOrientation(idm, c, cf, ornt);
    295:       }
    296:     }
    297:     DMPlexRestoreFaces_Internal(dm, cellDim, c, &numCellFaces, &faceSize, &cellFaces);
    298:   }
    299:   if (face != pEnd[faceDepth]) SETERRQ2(PetscObjectComm((PetscObject) dm), PETSC_ERR_PLIB, "Invalid number of faces %D should be %D", face-pStart[faceDepth], pEnd[faceDepth]-pStart[faceDepth]);
    300:   PetscFree2(pStart,pEnd);
    301:   PetscHashIJKLDestroy(&faceTable);
    302:   PetscFree2(pStart,pEnd);
    303:   DMPlexSymmetrize(idm);
    304:   DMPlexStratify(idm);
    305:   return(0);
    306: }

    310: /*@C
    311:   DMPlexInterpolate - Take in a cell-vertex mesh and return one with all intermediate faces, edges, etc.

    313:   Collective on DM

    315:   Input Parameters:
    316: + dm - The DMPlex object with only cells and vertices
    317: - dmInt - If NULL a new DM is created, otherwise the interpolated DM is put into the given DM

    319:   Output Parameter:
    320: . dmInt - The complete DMPlex object

    322:   Level: intermediate

    324: .keywords: mesh
    325: .seealso: DMPlexUninterpolate(), DMPlexCreateFromCellList()
    326: @*/
    327: PetscErrorCode DMPlexInterpolate(DM dm, DM *dmInt)
    328: {
    329:   DM             idm, odm = dm;
    330:   PetscInt       depth, dim, d;

    334:   PetscLogEventBegin(DMPLEX_Interpolate,dm,0,0,0);
    335:   DMPlexGetDepth(dm, &depth);
    336:   DMGetDimension(dm, &dim);
    337:   if (dim <= 1) {
    338:     PetscObjectReference((PetscObject) dm);
    339:     idm  = dm;
    340:   }
    341:   for (d = 1; d < dim; ++d) {
    342:     /* Create interpolated mesh */
    343:     if ((d == dim-1) && *dmInt) {idm  = *dmInt;}
    344:     else                        {DMCreate(PetscObjectComm((PetscObject)dm), &idm);}
    345:     DMSetType(idm, DMPLEX);
    346:     DMSetDimension(idm, dim);
    347:     if (depth > 0) {DMPlexInterpolateFaces_Internal(odm, 1, idm);}
    348:     if (odm != dm) {DMDestroy(&odm);}
    349:     odm  = idm;
    350:   }
    351:   *dmInt = idm;
    352:   PetscLogEventEnd(DMPLEX_Interpolate,dm,0,0,0);
    353:   return(0);
    354: }

    358: /*@
    359:   DMPlexCopyCoordinates - Copy coordinates from one mesh to another with the same vertices

    361:   Collective on DM

    363:   Input Parameter:
    364: . dmA - The DMPlex object with initial coordinates

    366:   Output Parameter:
    367: . dmB - The DMPlex object with copied coordinates

    369:   Level: intermediate

    371:   Note: This is typically used when adding pieces other than vertices to a mesh

    373: .keywords: mesh
    374: .seealso: DMCopyLabels(), DMGetCoordinates(), DMGetCoordinatesLocal(), DMGetCoordinateDM(), DMGetCoordinateSection()
    375: @*/
    376: PetscErrorCode DMPlexCopyCoordinates(DM dmA, DM dmB)
    377: {
    378:   Vec            coordinatesA, coordinatesB;
    379:   PetscSection   coordSectionA, coordSectionB;
    380:   PetscScalar   *coordsA, *coordsB;
    381:   PetscInt       spaceDim, vStartA, vStartB, vEndA, vEndB, coordSizeB, v, d;

    385:   if (dmA == dmB) return(0);
    386:   DMPlexGetDepthStratum(dmA, 0, &vStartA, &vEndA);
    387:   DMPlexGetDepthStratum(dmB, 0, &vStartB, &vEndB);
    388:   if ((vEndA-vStartA) != (vEndB-vStartB)) SETERRQ2(PETSC_COMM_SELF, PETSC_ERR_ARG_SIZ, "The number of vertices in first DM %d != %d in the second DM", vEndA-vStartA, vEndB-vStartB);
    389:   DMGetCoordinateSection(dmA, &coordSectionA);
    390:   DMGetCoordinateSection(dmB, &coordSectionB);
    391:   if (!coordSectionB) {
    392:     PetscInt dim;

    394:     PetscSectionCreate(PetscObjectComm((PetscObject) coordSectionA), &coordSectionB);
    395:     DMGetCoordinateDim(dmA, &dim);
    396:     DMSetCoordinateSection(dmB, dim, coordSectionB);
    397:     PetscObjectDereference((PetscObject) coordSectionB);
    398:   }
    399:   PetscSectionSetNumFields(coordSectionB, 1);
    400:   PetscSectionGetFieldComponents(coordSectionA, 0, &spaceDim);
    401:   PetscSectionSetFieldComponents(coordSectionB, 0, spaceDim);
    402:   PetscSectionSetChart(coordSectionB, vStartB, vEndB);
    403:   for (v = vStartB; v < vEndB; ++v) {
    404:     PetscSectionSetDof(coordSectionB, v, spaceDim);
    405:     PetscSectionSetFieldDof(coordSectionB, v, 0, spaceDim);
    406:   }
    407:   PetscSectionSetUp(coordSectionB);
    408:   PetscSectionGetStorageSize(coordSectionB, &coordSizeB);
    409:   DMGetCoordinatesLocal(dmA, &coordinatesA);
    410:   VecCreate(PetscObjectComm((PetscObject) dmB), &coordinatesB);
    411:   PetscObjectSetName((PetscObject) coordinatesB, "coordinates");
    412:   VecSetSizes(coordinatesB, coordSizeB, PETSC_DETERMINE);
    413:   VecSetType(coordinatesB,VECSTANDARD);
    414:   VecGetArray(coordinatesA, &coordsA);
    415:   VecGetArray(coordinatesB, &coordsB);
    416:   for (v = 0; v < vEndB-vStartB; ++v) {
    417:     for (d = 0; d < spaceDim; ++d) {
    418:       coordsB[v*spaceDim+d] = coordsA[v*spaceDim+d];
    419:     }
    420:   }
    421:   VecRestoreArray(coordinatesA, &coordsA);
    422:   VecRestoreArray(coordinatesB, &coordsB);
    423:   DMSetCoordinatesLocal(dmB, coordinatesB);
    424:   VecDestroy(&coordinatesB);
    425:   return(0);
    426: }

    430: /*@
    431:   DMPlexUninterpolate - Take in a mesh with all intermediate faces, edges, etc. and return a cell-vertex mesh

    433:   Collective on DM

    435:   Input Parameter:
    436: . dm - The complete DMPlex object

    438:   Output Parameter:
    439: . dmUnint - The DMPlex object with only cells and vertices

    441:   Level: intermediate

    443: .keywords: mesh
    444: .seealso: DMPlexInterpolate(), DMPlexCreateFromCellList()
    445: @*/
    446: PetscErrorCode DMPlexUninterpolate(DM dm, DM *dmUnint)
    447: {
    448:   DM             udm;
    449:   PetscInt       dim, vStart, vEnd, cStart, cEnd, c, maxConeSize = 0, *cone;

    453:   DMGetDimension(dm, &dim);
    454:   if (dim <= 1) {
    455:     PetscObjectReference((PetscObject) dm);
    456:     *dmUnint = dm;
    457:     return(0);
    458:   }
    459:   DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);
    460:   DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);
    461:   DMCreate(PetscObjectComm((PetscObject) dm), &udm);
    462:   DMSetType(udm, DMPLEX);
    463:   DMSetDimension(udm, dim);
    464:   DMPlexSetChart(udm, cStart, vEnd);
    465:   for (c = cStart; c < cEnd; ++c) {
    466:     PetscInt *closure = NULL, closureSize, cl, coneSize = 0;

    468:     DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);
    469:     for (cl = 0; cl < closureSize*2; cl += 2) {
    470:       const PetscInt p = closure[cl];

    472:       if ((p >= vStart) && (p < vEnd)) ++coneSize;
    473:     }
    474:     DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);
    475:     DMPlexSetConeSize(udm, c, coneSize);
    476:     maxConeSize = PetscMax(maxConeSize, coneSize);
    477:   }
    478:   DMSetUp(udm);
    479:   PetscMalloc1(maxConeSize, &cone);
    480:   for (c = cStart; c < cEnd; ++c) {
    481:     PetscInt *closure = NULL, closureSize, cl, coneSize = 0;

    483:     DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);
    484:     for (cl = 0; cl < closureSize*2; cl += 2) {
    485:       const PetscInt p = closure[cl];

    487:       if ((p >= vStart) && (p < vEnd)) cone[coneSize++] = p;
    488:     }
    489:     DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);
    490:     DMPlexSetCone(udm, c, cone);
    491:   }
    492:   PetscFree(cone);
    493:   DMPlexSymmetrize(udm);
    494:   DMPlexStratify(udm);
    495:   /* Reduce SF */
    496:   {
    497:     PetscSF            sfPoint, sfPointUn;
    498:     const PetscSFNode *remotePoints;
    499:     const PetscInt    *localPoints;
    500:     PetscSFNode       *remotePointsUn;
    501:     PetscInt          *localPointsUn;
    502:     PetscInt           vEnd, numRoots, numLeaves, l;
    503:     PetscInt           numLeavesUn = 0, n = 0;
    504:     PetscErrorCode     ierr;

    506:     /* Get original SF information */
    507:     DMGetPointSF(dm, &sfPoint);
    508:     DMGetPointSF(udm, &sfPointUn);
    509:     DMPlexGetDepthStratum(dm, 0, NULL, &vEnd);
    510:     PetscSFGetGraph(sfPoint, &numRoots, &numLeaves, &localPoints, &remotePoints);
    511:     /* Allocate space for cells and vertices */
    512:     for (l = 0; l < numLeaves; ++l) if (localPoints[l] < vEnd) numLeavesUn++;
    513:     /* Fill in leaves */
    514:     if (vEnd >= 0) {
    515:       PetscMalloc1(numLeavesUn, &remotePointsUn);
    516:       PetscMalloc1(numLeavesUn, &localPointsUn);
    517:       for (l = 0; l < numLeaves; l++) {
    518:         if (localPoints[l] < vEnd) {
    519:           localPointsUn[n]        = localPoints[l];
    520:           remotePointsUn[n].rank  = remotePoints[l].rank;
    521:           remotePointsUn[n].index = remotePoints[l].index;
    522:           ++n;
    523:         }
    524:       }
    525:       if (n != numLeavesUn) SETERRQ2(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Inconsistent number of leaves %d != %d", n, numLeavesUn);
    526:       PetscSFSetGraph(sfPointUn, vEnd, numLeavesUn, localPointsUn, PETSC_OWN_POINTER, remotePointsUn, PETSC_OWN_POINTER);
    527:     }
    528:   }
    529:   *dmUnint = udm;
    530:   return(0);
    531: }