Actual source code: tetgenerate.cxx

      1: #include <petsc/private/dmpleximpl.h>

      3: #ifdef PETSC_HAVE_EGADS
      4:   #include <egads.h>
      5:   #include <egads_lite.h>
      6: #endif

      8: #if defined(PETSC_HAVE_TETGEN_TETLIBRARY_NEEDED)
      9:   #define TETLIBRARY
     10: #endif
     11: #if defined(__clang__)
     12:   #pragma clang diagnostic push
     13:   #pragma clang diagnostic ignored "-Wunused-parameter"
     14:   #pragma clang diagnostic ignored "-Wzero-as-null-pointer-constant"
     15: #elif defined(__GNUC__) || defined(__GNUG__)
     16:   #pragma GCC diagnostic push
     17:   #pragma GCC diagnostic ignored "-Wunused-parameter"
     18: #endif
     19: #include <tetgen.h>
     20: #if defined(__clang__)
     21:   #pragma clang diagnostic pop
     22: #elif defined(__GNUC__) || defined(__GNUG__)
     23:   #pragma GCC diagnostic pop
     24: #endif

     26: /* This is to fix the tetrahedron orientation from TetGen */
     27: static PetscErrorCode DMPlexInvertCells_Tetgen(PetscInt numCells, PetscInt numCorners, PetscInt cells[])
     28: {
     29:   PetscInt bound = numCells * numCorners, coff;

     31:   PetscFunctionBegin;
     32: #define SWAP(a, b) \
     33:   do { \
     34:     PetscInt tmp = (a); \
     35:     (a)          = (b); \
     36:     (b)          = tmp; \
     37:   } while (0)
     38:   for (coff = 0; coff < bound; coff += numCorners) SWAP(cells[coff], cells[coff + 1]);
     39: #undef SWAP
     40:   PetscFunctionReturn(PETSC_SUCCESS);
     41: }

     43: PETSC_EXTERN PetscErrorCode DMPlexGenerate_Tetgen(DM boundary, PetscBool interpolate, DM *dm)
     44: {
     45:   MPI_Comm               comm;
     46:   const PetscInt         dim = 3;
     47:   ::tetgenio             in;
     48:   ::tetgenio             out;
     49:   PetscContainer         modelObj;
     50:   DMUniversalLabel       universal;
     51:   PetscInt               vStart, vEnd, v, eStart, eEnd, e, fStart, fEnd, f, defVal;
     52:   DMPlexInterpolatedFlag isInterpolated;
     53:   PetscMPIInt            rank;
     54:   PetscBool              flg;
     55:   char                   opts[64];

     57:   PetscFunctionBegin;
     58:   PetscCall(PetscObjectGetComm((PetscObject)boundary, &comm));
     59:   PetscCallMPI(MPI_Comm_rank(comm, &rank));
     60:   PetscCall(DMPlexIsInterpolatedCollective(boundary, &isInterpolated));
     61:   PetscCall(DMUniversalLabelCreate(boundary, &universal));
     62:   PetscCall(DMLabelGetDefaultValue(universal->label, &defVal));
     63:   PetscCall(PetscOptionsGetString(((PetscObject)boundary)->options, ((PetscObject)boundary)->prefix, "-dm_plex_generate_tetgen_opts", opts, sizeof(opts), &flg));
     64:   if (flg) PetscCall(DMPlexTetgenSetOptions(boundary, opts));

     66:   PetscCall(DMPlexGetDepthStratum(boundary, 0, &vStart, &vEnd));
     67:   in.numberofpoints = vEnd - vStart;
     68:   if (in.numberofpoints > 0) {
     69:     PetscSection       coordSection;
     70:     Vec                coordinates;
     71:     const PetscScalar *array;

     73:     in.pointlist       = new double[in.numberofpoints * dim];
     74:     in.pointmarkerlist = new int[in.numberofpoints];

     76:     PetscCall(PetscArrayzero(in.pointmarkerlist, (size_t)in.numberofpoints));
     77:     PetscCall(DMGetCoordinatesLocal(boundary, &coordinates));
     78:     PetscCall(DMGetCoordinateSection(boundary, &coordSection));
     79:     PetscCall(VecGetArrayRead(coordinates, &array));
     80:     for (v = vStart; v < vEnd; ++v) {
     81:       const PetscInt idx = v - vStart;
     82:       PetscInt       off, d, val;

     84:       PetscCall(PetscSectionGetOffset(coordSection, v, &off));
     85:       for (d = 0; d < dim; ++d) in.pointlist[idx * dim + d] = PetscRealPart(array[off + d]);
     86:       PetscCall(DMLabelGetValue(universal->label, v, &val));
     87:       if (val != defVal) in.pointmarkerlist[idx] = (int)val;
     88:     }
     89:     PetscCall(VecRestoreArrayRead(coordinates, &array));
     90:   }

     92:   PetscCall(DMPlexGetHeightStratum(boundary, 1, &eStart, &eEnd));
     93:   in.numberofedges = eEnd - eStart;
     94:   if (isInterpolated == DMPLEX_INTERPOLATED_FULL && in.numberofedges > 0) {
     95:     in.edgelist       = new int[in.numberofedges * 2];
     96:     in.edgemarkerlist = new int[in.numberofedges];
     97:     for (e = eStart; e < eEnd; ++e) {
     98:       const PetscInt  idx = e - eStart;
     99:       const PetscInt *cone;
    100:       PetscInt        coneSize, val;

    102:       PetscCall(DMPlexGetConeSize(boundary, e, &coneSize));
    103:       PetscCall(DMPlexGetCone(boundary, e, &cone));
    104:       in.edgelist[idx * 2]     = cone[0] - vStart;
    105:       in.edgelist[idx * 2 + 1] = cone[1] - vStart;

    107:       PetscCall(DMLabelGetValue(universal->label, e, &val));
    108:       if (val != defVal) in.edgemarkerlist[idx] = (int)val;
    109:     }
    110:   }

    112:   PetscCall(DMPlexGetHeightStratum(boundary, 0, &fStart, &fEnd));
    113:   in.numberoffacets = fEnd - fStart;
    114:   if (in.numberoffacets > 0) {
    115:     in.facetlist       = new tetgenio::facet[in.numberoffacets];
    116:     in.facetmarkerlist = new int[in.numberoffacets];
    117:     for (f = fStart; f < fEnd; ++f) {
    118:       const PetscInt idx    = f - fStart;
    119:       PetscInt      *points = nullptr, numPoints, p, numVertices = 0, v, val = -1;

    121:       in.facetlist[idx].numberofpolygons = 1;
    122:       in.facetlist[idx].polygonlist      = new tetgenio::polygon[in.facetlist[idx].numberofpolygons];
    123:       in.facetlist[idx].numberofholes    = 0;
    124:       in.facetlist[idx].holelist         = nullptr;

    126:       PetscCall(DMPlexGetTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points));
    127:       for (p = 0; p < numPoints * 2; p += 2) {
    128:         const PetscInt point = points[p];
    129:         if ((point >= vStart) && (point < vEnd)) points[numVertices++] = point;
    130:       }

    132:       tetgenio::polygon *poly = in.facetlist[idx].polygonlist;
    133:       poly->numberofvertices  = numVertices;
    134:       poly->vertexlist        = new int[poly->numberofvertices];
    135:       for (v = 0; v < numVertices; ++v) {
    136:         const PetscInt vIdx = points[v] - vStart;
    137:         poly->vertexlist[v] = vIdx;
    138:       }
    139:       PetscCall(DMLabelGetValue(universal->label, f, &val));
    140:       if (val != defVal) in.facetmarkerlist[idx] = (int)val;
    141:       PetscCall(DMPlexRestoreTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points));
    142:     }
    143:   }
    144:   if (rank == 0) {
    145:     DM_Plex *mesh = (DM_Plex *)boundary->data;
    146:     char     args[32];

    148:     /* Take away 'Q' for verbose output */
    149: #ifdef PETSC_HAVE_EGADS
    150:     PetscCall(PetscStrncpy(args, "pYqezQY", sizeof(args)));
    151: #else
    152:     PetscCall(PetscStrncpy(args, "pqezQ", sizeof(args)));
    153: #endif
    154:     if (mesh->tetgenOpts) {
    155:       ::tetrahedralize(mesh->tetgenOpts, &in, &out);
    156:     } else {
    157:       ::tetrahedralize(args, &in, &out);
    158:     }
    159:   }
    160:   {
    161:     const PetscInt numCorners  = 4;
    162:     const PetscInt numCells    = out.numberoftetrahedra;
    163:     const PetscInt numVertices = out.numberofpoints;
    164:     PetscReal     *meshCoords  = nullptr;
    165:     PetscInt      *cells       = nullptr;

    167:     if (sizeof(PetscReal) == sizeof(out.pointlist[0])) {
    168:       meshCoords = (PetscReal *)out.pointlist;
    169:     } else {
    170:       PetscInt i;

    172:       meshCoords = new PetscReal[dim * numVertices];
    173:       for (i = 0; i < dim * numVertices; ++i) meshCoords[i] = (PetscReal)out.pointlist[i];
    174:     }
    175:     if (sizeof(PetscInt) == sizeof(out.tetrahedronlist[0])) {
    176:       cells = (PetscInt *)out.tetrahedronlist;
    177:     } else {
    178:       PetscInt i;

    180:       cells = new PetscInt[numCells * numCorners];
    181:       for (i = 0; i < numCells * numCorners; i++) cells[i] = (PetscInt)out.tetrahedronlist[i];
    182:     }

    184:     PetscCall(DMPlexInvertCells_Tetgen(numCells, numCorners, cells));
    185:     PetscCall(DMPlexCreateFromCellListPetsc(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dm));

    187:     /* Set labels */
    188:     PetscCall(DMUniversalLabelCreateLabels(universal, PETSC_TRUE, *dm));
    189:     for (v = 0; v < numVertices; ++v) {
    190:       if (out.pointmarkerlist[v]) PetscCall(DMUniversalLabelSetLabelValue(universal, *dm, PETSC_TRUE, v + numCells, out.pointmarkerlist[v]));
    191:     }
    192:     if (interpolate) {
    193:       PetscInt e;

    195:       for (e = 0; e < out.numberofedges; e++) {
    196:         if (out.edgemarkerlist[e]) {
    197:           const PetscInt  vertices[2] = {out.edgelist[e * 2 + 0] + numCells, out.edgelist[e * 2 + 1] + numCells};
    198:           const PetscInt *edges;
    199:           PetscInt        numEdges;

    201:           PetscCall(DMPlexGetJoin(*dm, 2, vertices, &numEdges, &edges));
    202:           PetscCheck(numEdges == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %" PetscInt_FMT, numEdges);
    203:           PetscCall(DMUniversalLabelSetLabelValue(universal, *dm, PETSC_TRUE, edges[0], out.edgemarkerlist[e]));
    204:           PetscCall(DMPlexRestoreJoin(*dm, 2, vertices, &numEdges, &edges));
    205:         }
    206:       }
    207:       for (f = 0; f < out.numberoftrifaces; f++) {
    208:         if (out.trifacemarkerlist[f]) {
    209:           const PetscInt  vertices[3] = {out.trifacelist[f * 3 + 0] + numCells, out.trifacelist[f * 3 + 1] + numCells, out.trifacelist[f * 3 + 2] + numCells};
    210:           const PetscInt *faces;
    211:           PetscInt        numFaces;

    213:           PetscCall(DMPlexGetFullJoin(*dm, 3, vertices, &numFaces, &faces));
    214:           PetscCheck(numFaces == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %" PetscInt_FMT, numFaces);
    215:           PetscCall(DMUniversalLabelSetLabelValue(universal, *dm, PETSC_TRUE, faces[0], out.trifacemarkerlist[f]));
    216:           PetscCall(DMPlexRestoreJoin(*dm, 3, vertices, &numFaces, &faces));
    217:         }
    218:       }
    219:     }

    221:     PetscCall(PetscObjectQuery((PetscObject)boundary, "EGADS Model", (PetscObject *)&modelObj));
    222:     if (!modelObj) PetscCall(PetscObjectQuery((PetscObject)boundary, "EGADSlite Model", (PetscObject *)&modelObj));

    224:     if (modelObj) {
    225: #ifdef PETSC_HAVE_EGADS
    226:       DMLabel   bodyLabel;
    227:       PetscInt  cStart, cEnd, c, eStart, eEnd, fStart, fEnd;
    228:       PetscBool islite = PETSC_FALSE;
    229:       ego      *bodies;
    230:       ego       model, geom;
    231:       int       Nb, oclass, mtype, *senses;

    233:       PetscCall(DMPlexCopyEGADSInfo_Internal(boundary, *dm));

    235:       // Get Attached EGADS Model from Original DMPlex
    236:       PetscCall(PetscObjectQuery((PetscObject)boundary, "EGADS Model", (PetscObject *)&modelObj));
    237:       if (modelObj) {
    238:         PetscCall(PetscContainerGetPointer(modelObj, (void **)&model));
    239:         PetscCall(EG_getTopology(model, &geom, &oclass, &mtype, nullptr, &Nb, &bodies, &senses));
    240:       } else {
    241:         PetscCall(PetscObjectQuery((PetscObject)boundary, "EGADSlite Model", (PetscObject *)&modelObj));
    242:         if (modelObj) {
    243:           PetscCall(PetscContainerGetPointer(modelObj, (void **)&model));
    244:           PetscCall(EGlite_getTopology(model, &geom, &oclass, &mtype, nullptr, &Nb, &bodies, &senses));
    245:           islite = PETSC_TRUE;
    246:         }
    247:       }
    248:       if (!modelObj) goto skip_egads;

    250:       /* Set Cell Labels */
    251:       PetscCall(DMGetLabel(*dm, "EGADS Body ID", &bodyLabel));
    252:       PetscCall(DMPlexGetHeightStratum(*dm, 0, &cStart, &cEnd));
    253:       PetscCall(DMPlexGetHeightStratum(*dm, 1, &fStart, &fEnd));
    254:       PetscCall(DMPlexGetDepthStratum(*dm, 1, &eStart, &eEnd));

    256:       for (c = cStart; c < cEnd; ++c) {
    257:         PetscReal centroid[3] = {0., 0., 0.};
    258:         PetscInt  b;

    260:         /* Determine what body the cell's centroid is located in */
    261:         if (!interpolate) {
    262:           PetscSection coordSection;
    263:           Vec          coordinates;
    264:           PetscScalar *coords = nullptr;
    265:           PetscInt     coordSize, s, d;

    267:           PetscCall(DMGetCoordinatesLocal(*dm, &coordinates));
    268:           PetscCall(DMGetCoordinateSection(*dm, &coordSection));
    269:           PetscCall(DMPlexVecGetClosure(*dm, coordSection, coordinates, c, &coordSize, &coords));
    270:           for (s = 0; s < coordSize; ++s)
    271:             for (d = 0; d < dim; ++d) centroid[d] += coords[s * dim + d];
    272:           PetscCall(DMPlexVecRestoreClosure(*dm, coordSection, coordinates, c, &coordSize, &coords));
    273:         } else PetscCall(DMPlexComputeCellGeometryFVM(*dm, c, nullptr, centroid, nullptr));
    274:         for (b = 0; b < Nb; ++b) {
    275:           if (islite) {
    276:             if (EGlite_inTopology(bodies[b], centroid) == EGADS_SUCCESS) break;
    277:           } else {
    278:             if (EG_inTopology(bodies[b], centroid) == EGADS_SUCCESS) break;
    279:           }
    280:         }
    281:         if (b < Nb) {
    282:           PetscInt  cval    = b, eVal, fVal;
    283:           PetscInt *closure = nullptr, Ncl, cl;

    285:           PetscCall(DMLabelSetValue(bodyLabel, c, cval));
    286:           PetscCall(DMPlexGetTransitiveClosure(*dm, c, PETSC_TRUE, &Ncl, &closure));
    287:           for (cl = 0; cl < Ncl; cl += 2) {
    288:             const PetscInt p = closure[cl];

    290:             if (p >= eStart && p < eEnd) {
    291:               PetscCall(DMLabelGetValue(bodyLabel, p, &eVal));
    292:               if (eVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
    293:             }
    294:             if (p >= fStart && p < fEnd) {
    295:               PetscCall(DMLabelGetValue(bodyLabel, p, &fVal));
    296:               if (fVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
    297:             }
    298:           }
    299:           PetscCall(DMPlexRestoreTransitiveClosure(*dm, c, PETSC_TRUE, &Ncl, &closure));
    300:         }
    301:       }
    302:     skip_egads:;
    303: #endif
    304:     }
    305:     PetscCall(DMPlexSetRefinementUniform(*dm, PETSC_FALSE));
    306:   }
    307:   PetscCall(DMUniversalLabelDestroy(&universal));
    308:   PetscFunctionReturn(PETSC_SUCCESS);
    309: }

    311: PETSC_EXTERN PetscErrorCode DMPlexRefine_Tetgen(DM dm, double *maxVolumes, DM *dmRefined)
    312: {
    313:   MPI_Comm               comm;
    314:   const PetscInt         dim = 3;
    315:   ::tetgenio             in;
    316:   ::tetgenio             out;
    317:   PetscContainer         modelObj;
    318:   DMUniversalLabel       universal;
    319:   PetscInt               vStart, vEnd, v, eStart, eEnd, e, fStart, fEnd, f, cStart, cEnd, c, defVal;
    320:   DMPlexInterpolatedFlag isInterpolated;
    321:   PetscMPIInt            rank;

    323:   PetscFunctionBegin;
    324:   PetscCall(PetscObjectGetComm((PetscObject)dm, &comm));
    325:   PetscCallMPI(MPI_Comm_rank(comm, &rank));
    326:   PetscCall(DMPlexIsInterpolatedCollective(dm, &isInterpolated));
    327:   PetscCall(DMUniversalLabelCreate(dm, &universal));
    328:   PetscCall(DMLabelGetDefaultValue(universal->label, &defVal));

    330:   PetscCall(DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd));
    331:   in.numberofpoints = vEnd - vStart;
    332:   if (in.numberofpoints > 0) {
    333:     PetscSection coordSection;
    334:     Vec          coordinates;
    335:     PetscScalar *array;

    337:     in.pointlist       = new double[in.numberofpoints * dim];
    338:     in.pointmarkerlist = new int[in.numberofpoints];

    340:     PetscCall(PetscArrayzero(in.pointmarkerlist, (size_t)in.numberofpoints));
    341:     PetscCall(DMGetCoordinatesLocal(dm, &coordinates));
    342:     PetscCall(DMGetCoordinateSection(dm, &coordSection));
    343:     PetscCall(VecGetArray(coordinates, &array));
    344:     for (v = vStart; v < vEnd; ++v) {
    345:       const PetscInt idx = v - vStart;
    346:       PetscInt       off, d, val;

    348:       PetscCall(PetscSectionGetOffset(coordSection, v, &off));
    349:       for (d = 0; d < dim; ++d) in.pointlist[idx * dim + d] = PetscRealPart(array[off + d]);
    350:       PetscCall(DMLabelGetValue(universal->label, v, &val));
    351:       if (val != defVal) in.pointmarkerlist[idx] = (int)val;
    352:     }
    353:     PetscCall(VecRestoreArray(coordinates, &array));
    354:   }

    356:   PetscCall(DMPlexGetDepthStratum(dm, 1, &eStart, &eEnd));
    357:   in.numberofedges = eEnd - eStart;
    358:   if (isInterpolated == DMPLEX_INTERPOLATED_FULL && in.numberofedges > 0) {
    359:     in.edgelist       = new int[in.numberofedges * 2];
    360:     in.edgemarkerlist = new int[in.numberofedges];
    361:     for (e = eStart; e < eEnd; ++e) {
    362:       const PetscInt  idx = e - eStart;
    363:       const PetscInt *cone;
    364:       PetscInt        coneSize, val;

    366:       PetscCall(DMPlexGetConeSize(dm, e, &coneSize));
    367:       PetscCall(DMPlexGetCone(dm, e, &cone));
    368:       in.edgelist[idx * 2]     = cone[0] - vStart;
    369:       in.edgelist[idx * 2 + 1] = cone[1] - vStart;

    371:       PetscCall(DMLabelGetValue(universal->label, e, &val));
    372:       if (val != defVal) in.edgemarkerlist[idx] = (int)val;
    373:     }
    374:   }

    376:   PetscCall(DMPlexGetHeightStratum(dm, 1, &fStart, &fEnd));
    377:   in.numberoffacets = fEnd - fStart;
    378:   if (isInterpolated == DMPLEX_INTERPOLATED_FULL && in.numberoffacets > 0) {
    379:     in.facetlist       = new tetgenio::facet[in.numberoffacets];
    380:     in.facetmarkerlist = new int[in.numberoffacets];
    381:     for (f = fStart; f < fEnd; ++f) {
    382:       const PetscInt idx    = f - fStart;
    383:       PetscInt      *points = nullptr, numPoints, p, numVertices = 0, v, val;

    385:       in.facetlist[idx].numberofpolygons = 1;
    386:       in.facetlist[idx].polygonlist      = new tetgenio::polygon[in.facetlist[idx].numberofpolygons];
    387:       in.facetlist[idx].numberofholes    = 0;
    388:       in.facetlist[idx].holelist         = nullptr;

    390:       PetscCall(DMPlexGetTransitiveClosure(dm, f, PETSC_TRUE, &numPoints, &points));
    391:       for (p = 0; p < numPoints * 2; p += 2) {
    392:         const PetscInt point = points[p];
    393:         if ((point >= vStart) && (point < vEnd)) points[numVertices++] = point;
    394:       }

    396:       tetgenio::polygon *poly = in.facetlist[idx].polygonlist;
    397:       poly->numberofvertices  = numVertices;
    398:       poly->vertexlist        = new int[poly->numberofvertices];
    399:       for (v = 0; v < numVertices; ++v) {
    400:         const PetscInt vIdx = points[v] - vStart;
    401:         poly->vertexlist[v] = vIdx;
    402:       }

    404:       PetscCall(DMLabelGetValue(universal->label, f, &val));
    405:       if (val != defVal) in.facetmarkerlist[idx] = (int)val;

    407:       PetscCall(DMPlexRestoreTransitiveClosure(dm, f, PETSC_TRUE, &numPoints, &points));
    408:     }
    409:   }

    411:   PetscCall(DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd));
    412:   in.numberofcorners       = 4;
    413:   in.numberoftetrahedra    = cEnd - cStart;
    414:   in.tetrahedronvolumelist = (double *)maxVolumes;
    415:   if (in.numberoftetrahedra > 0) {
    416:     in.tetrahedronlist = new int[in.numberoftetrahedra * in.numberofcorners];
    417:     for (c = cStart; c < cEnd; ++c) {
    418:       const PetscInt idx     = c - cStart;
    419:       PetscInt      *closure = nullptr;
    420:       PetscInt       closureSize;

    422:       PetscCall(DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure));
    423:       PetscCheck(!(closureSize != 5) || !(closureSize != 15), comm, PETSC_ERR_ARG_WRONG, "Mesh has cell which is not a tetrahedron, %" PetscInt_FMT " vertices in closure", closureSize);
    424:       for (v = 0; v < 4; ++v) in.tetrahedronlist[idx * in.numberofcorners + v] = closure[(v + closureSize - 4) * 2] - vStart;
    425:       PetscCall(DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure));
    426:     }
    427:   }

    429:   if (rank == 0) {
    430:     char args[32];

    432:     /* Take away 'Q' for verbose output */
    433:     PetscCall(PetscStrncpy(args, "qezQra", sizeof(args)));
    434:     ::tetrahedralize(args, &in, &out);
    435:   }

    437:   in.tetrahedronvolumelist = nullptr;
    438:   {
    439:     const PetscInt numCorners  = 4;
    440:     const PetscInt numCells    = out.numberoftetrahedra;
    441:     const PetscInt numVertices = out.numberofpoints;
    442:     PetscReal     *meshCoords  = nullptr;
    443:     PetscInt      *cells       = nullptr;
    444:     PetscBool      interpolate = isInterpolated == DMPLEX_INTERPOLATED_FULL ? PETSC_TRUE : PETSC_FALSE;

    446:     if (sizeof(PetscReal) == sizeof(out.pointlist[0])) {
    447:       meshCoords = (PetscReal *)out.pointlist;
    448:     } else {
    449:       PetscInt i;

    451:       meshCoords = new PetscReal[dim * numVertices];
    452:       for (i = 0; i < dim * numVertices; ++i) meshCoords[i] = (PetscReal)out.pointlist[i];
    453:     }
    454:     if (sizeof(PetscInt) == sizeof(out.tetrahedronlist[0])) {
    455:       cells = (PetscInt *)out.tetrahedronlist;
    456:     } else {
    457:       PetscInt i;

    459:       cells = new PetscInt[numCells * numCorners];
    460:       for (i = 0; i < numCells * numCorners; ++i) cells[i] = (PetscInt)out.tetrahedronlist[i];
    461:     }

    463:     PetscCall(DMPlexInvertCells_Tetgen(numCells, numCorners, cells));
    464:     PetscCall(DMPlexCreateFromCellListPetsc(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dmRefined));
    465:     if (sizeof(PetscReal) != sizeof(out.pointlist[0])) delete[] meshCoords;
    466:     if (sizeof(PetscInt) != sizeof(out.tetrahedronlist[0])) delete[] cells;

    468:     /* Set labels */
    469:     PetscCall(DMUniversalLabelCreateLabels(universal, PETSC_TRUE, *dmRefined));
    470:     for (v = 0; v < numVertices; ++v) {
    471:       if (out.pointmarkerlist[v]) PetscCall(DMUniversalLabelSetLabelValue(universal, *dmRefined, PETSC_TRUE, v + numCells, out.pointmarkerlist[v]));
    472:     }
    473:     if (interpolate) {
    474:       PetscInt e, f;

    476:       for (e = 0; e < out.numberofedges; ++e) {
    477:         if (out.edgemarkerlist[e]) {
    478:           const PetscInt  vertices[2] = {out.edgelist[e * 2 + 0] + numCells, out.edgelist[e * 2 + 1] + numCells};
    479:           const PetscInt *edges;
    480:           PetscInt        numEdges;

    482:           PetscCall(DMPlexGetJoin(*dmRefined, 2, vertices, &numEdges, &edges));
    483:           PetscCheck(numEdges == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %" PetscInt_FMT, numEdges);
    484:           PetscCall(DMUniversalLabelSetLabelValue(universal, *dmRefined, PETSC_TRUE, edges[0], out.edgemarkerlist[e]));
    485:           PetscCall(DMPlexRestoreJoin(*dmRefined, 2, vertices, &numEdges, &edges));
    486:         }
    487:       }
    488:       for (f = 0; f < out.numberoftrifaces; ++f) {
    489:         if (out.trifacemarkerlist[f]) {
    490:           const PetscInt  vertices[3] = {out.trifacelist[f * 3 + 0] + numCells, out.trifacelist[f * 3 + 1] + numCells, out.trifacelist[f * 3 + 2] + numCells};
    491:           const PetscInt *faces;
    492:           PetscInt        numFaces;

    494:           PetscCall(DMPlexGetFullJoin(*dmRefined, 3, vertices, &numFaces, &faces));
    495:           PetscCheck(numFaces == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %" PetscInt_FMT, numFaces);
    496:           PetscCall(DMUniversalLabelSetLabelValue(universal, *dmRefined, PETSC_TRUE, faces[0], out.trifacemarkerlist[f]));
    497:           PetscCall(DMPlexRestoreJoin(*dmRefined, 3, vertices, &numFaces, &faces));
    498:         }
    499:       }
    500:     }

    502:     PetscCall(PetscObjectQuery((PetscObject)dm, "EGADS Model", (PetscObject *)&modelObj));
    503:     if (modelObj) {
    504: #ifdef PETSC_HAVE_EGADS
    505:       DMLabel   bodyLabel;
    506:       PetscInt  cStart, cEnd, c, eStart, eEnd, fStart, fEnd;
    507:       PetscBool islite = PETSC_FALSE;
    508:       ego      *bodies;
    509:       ego       model, geom;
    510:       int       Nb, oclass, mtype, *senses;

    512:       PetscCall(DMPlexCopyEGADSInfo_Internal(dm, *dmRefined));

    514:       /* Get Attached EGADS Model from Original DMPlex */
    515:       PetscCall(PetscObjectQuery((PetscObject)dm, "EGADS Model", (PetscObject *)&modelObj));
    516:       if (modelObj) {
    517:         PetscCall(PetscContainerGetPointer(modelObj, (void **)&model));
    518:         PetscCall(EG_getTopology(model, &geom, &oclass, &mtype, nullptr, &Nb, &bodies, &senses));
    519:       } else {
    520:         PetscCall(PetscObjectQuery((PetscObject)dm, "EGADSlite Model", (PetscObject *)&modelObj));
    521:         if (modelObj) {
    522:           PetscCall(PetscContainerGetPointer(modelObj, (void **)&model));
    523:           PetscCall(EGlite_getTopology(model, &geom, &oclass, &mtype, nullptr, &Nb, &bodies, &senses));
    524:           islite = PETSC_TRUE;
    525:         }
    526:       }
    527:       if (!modelObj) goto skip_egads;

    529:       /* Set Cell Labels */
    530:       PetscCall(DMGetLabel(*dmRefined, "EGADS Body ID", &bodyLabel));
    531:       PetscCall(DMPlexGetHeightStratum(*dmRefined, 0, &cStart, &cEnd));
    532:       PetscCall(DMPlexGetHeightStratum(*dmRefined, 1, &fStart, &fEnd));
    533:       PetscCall(DMPlexGetDepthStratum(*dmRefined, 1, &eStart, &eEnd));

    535:       for (c = cStart; c < cEnd; ++c) {
    536:         PetscReal centroid[3] = {0., 0., 0.};
    537:         PetscInt  b;

    539:         /* Determine what body the cell's centroid is located in */
    540:         if (!interpolate) {
    541:           PetscSection coordSection;
    542:           Vec          coordinates;
    543:           PetscScalar *coords = nullptr;
    544:           PetscInt     coordSize, s, d;

    546:           PetscCall(DMGetCoordinatesLocal(*dmRefined, &coordinates));
    547:           PetscCall(DMGetCoordinateSection(*dmRefined, &coordSection));
    548:           PetscCall(DMPlexVecGetClosure(*dmRefined, coordSection, coordinates, c, &coordSize, &coords));
    549:           for (s = 0; s < coordSize; ++s)
    550:             for (d = 0; d < dim; ++d) centroid[d] += coords[s * dim + d];
    551:           PetscCall(DMPlexVecRestoreClosure(*dmRefined, coordSection, coordinates, c, &coordSize, &coords));
    552:         } else PetscCall(DMPlexComputeCellGeometryFVM(*dmRefined, c, nullptr, centroid, nullptr));
    553:         for (b = 0; b < Nb; ++b) {
    554:           if (islite) {
    555:             if (EGlite_inTopology(bodies[b], centroid) == EGADS_SUCCESS) break;
    556:           } else {
    557:             if (EG_inTopology(bodies[b], centroid) == EGADS_SUCCESS) break;
    558:           }
    559:         }
    560:         if (b < Nb) {
    561:           PetscInt  cval    = b, eVal, fVal;
    562:           PetscInt *closure = nullptr, Ncl, cl;

    564:           PetscCall(DMLabelSetValue(bodyLabel, c, cval));
    565:           PetscCall(DMPlexGetTransitiveClosure(*dmRefined, c, PETSC_TRUE, &Ncl, &closure));
    566:           for (cl = 0; cl < Ncl; cl += 2) {
    567:             const PetscInt p = closure[cl];

    569:             if (p >= eStart && p < eEnd) {
    570:               PetscCall(DMLabelGetValue(bodyLabel, p, &eVal));
    571:               if (eVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
    572:             }
    573:             if (p >= fStart && p < fEnd) {
    574:               PetscCall(DMLabelGetValue(bodyLabel, p, &fVal));
    575:               if (fVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
    576:             }
    577:           }
    578:           PetscCall(DMPlexRestoreTransitiveClosure(*dmRefined, c, PETSC_TRUE, &Ncl, &closure));
    579:         }
    580:       }
    581:     skip_egads:;
    582: #endif
    583:     }
    584:     PetscCall(DMPlexSetRefinementUniform(*dmRefined, PETSC_FALSE));
    585:   }
    586:   PetscFunctionReturn(PETSC_SUCCESS);
    587: }