Actual source code: ctetgenerate.c
1: #include <petsc/private/dmpleximpl.h>
3: #ifdef PETSC_HAVE_EGADS
4: #include <egads.h>
5: #endif
7: #include <ctetgen.h>
9: /* This is to fix the tetrahedron orientation from TetGen */
10: static PetscErrorCode DMPlexInvertCells_CTetgen(PetscInt numCells, PetscInt numCorners, PetscInt cells[])
11: {
12: PetscInt bound = numCells * numCorners, coff;
14: PetscFunctionBegin;
15: #define SWAP(a, b) \
16: do { \
17: PetscInt tmp = (a); \
18: (a) = (b); \
19: (b) = tmp; \
20: } while (0)
21: for (coff = 0; coff < bound; coff += numCorners) SWAP(cells[coff], cells[coff + 1]);
22: #undef SWAP
23: PetscFunctionReturn(PETSC_SUCCESS);
24: }
26: PETSC_EXTERN PetscErrorCode DMPlexGenerate_CTetgen(DM boundary, PetscBool interpolate, DM *dm)
27: {
28: MPI_Comm comm;
29: const PetscInt dim = 3;
30: PLC *in, *out;
31: DMUniversalLabel universal;
32: PetscInt vStart, vEnd, v, eStart, eEnd, e, fStart, fEnd, f, defVal, verbose = 0;
33: DMPlexInterpolatedFlag isInterpolated;
34: PetscMPIInt rank;
36: PetscFunctionBegin;
37: PetscCall(PetscOptionsGetInt(NULL, ((PetscObject)boundary)->prefix, "-ctetgen_verbose", &verbose, NULL));
38: PetscCall(PetscObjectGetComm((PetscObject)boundary, &comm));
39: PetscCallMPI(MPI_Comm_rank(comm, &rank));
40: PetscCall(DMPlexIsInterpolatedCollective(boundary, &isInterpolated));
41: PetscCall(DMUniversalLabelCreate(boundary, &universal));
42: PetscCall(DMLabelGetDefaultValue(universal->label, &defVal));
44: PetscCall(PLCCreate(&in));
45: PetscCall(PLCCreate(&out));
47: PetscCall(DMPlexGetDepthStratum(boundary, 0, &vStart, &vEnd));
48: in->numberofpoints = vEnd - vStart;
49: if (in->numberofpoints > 0) {
50: PetscSection coordSection;
51: Vec coordinates;
52: const PetscScalar *array;
54: PetscCall(PetscMalloc1(in->numberofpoints * dim, &in->pointlist));
55: PetscCall(PetscCalloc1(in->numberofpoints, &in->pointmarkerlist));
56: PetscCall(DMGetCoordinatesLocal(boundary, &coordinates));
57: PetscCall(DMGetCoordinateSection(boundary, &coordSection));
58: PetscCall(VecGetArrayRead(coordinates, &array));
59: for (v = vStart; v < vEnd; ++v) {
60: const PetscInt idx = v - vStart;
61: PetscInt off, d, m;
63: PetscCall(PetscSectionGetOffset(coordSection, v, &off));
64: for (d = 0; d < dim; ++d) in->pointlist[idx * dim + d] = PetscRealPart(array[off + d]);
65: PetscCall(DMLabelGetValue(universal->label, v, &m));
66: if (m != defVal) in->pointmarkerlist[idx] = (int)m;
67: }
68: PetscCall(VecRestoreArrayRead(coordinates, &array));
69: }
71: PetscCall(DMPlexGetHeightStratum(boundary, 1, &eStart, &eEnd));
72: in->numberofedges = eEnd - eStart;
73: if (isInterpolated == DMPLEX_INTERPOLATED_FULL && in->numberofedges > 0) {
74: PetscCall(PetscMalloc1(in->numberofedges * 2, &in->edgelist));
75: PetscCall(PetscMalloc1(in->numberofedges, &in->edgemarkerlist));
76: for (e = eStart; e < eEnd; ++e) {
77: const PetscInt idx = e - eStart;
78: const PetscInt *cone;
79: PetscInt coneSize, val;
81: PetscCall(DMPlexGetConeSize(boundary, e, &coneSize));
82: PetscCall(DMPlexGetCone(boundary, e, &cone));
83: in->edgelist[idx * 2] = cone[0] - vStart;
84: in->edgelist[idx * 2 + 1] = cone[1] - vStart;
86: PetscCall(DMLabelGetValue(universal->label, e, &val));
87: if (val != defVal) in->edgemarkerlist[idx] = (int)val;
88: }
89: }
91: PetscCall(DMPlexGetHeightStratum(boundary, 0, &fStart, &fEnd));
92: in->numberoffacets = fEnd - fStart;
93: if (in->numberoffacets > 0) {
94: PetscCall(PetscMalloc1(in->numberoffacets, &in->facetlist));
95: PetscCall(PetscMalloc1(in->numberoffacets, &in->facetmarkerlist));
96: for (f = fStart; f < fEnd; ++f) {
97: const PetscInt idx = f - fStart;
98: PetscInt *points = NULL, numPoints, p, numVertices = 0, v, m = -1;
99: polygon *poly;
101: in->facetlist[idx].numberofpolygons = 1;
102: PetscCall(PetscMalloc1(in->facetlist[idx].numberofpolygons, &in->facetlist[idx].polygonlist));
103: in->facetlist[idx].numberofholes = 0;
104: in->facetlist[idx].holelist = NULL;
106: PetscCall(DMPlexGetTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points));
107: for (p = 0; p < numPoints * 2; p += 2) {
108: const PetscInt point = points[p];
109: if ((point >= vStart) && (point < vEnd)) points[numVertices++] = point;
110: }
112: poly = in->facetlist[idx].polygonlist;
113: poly->numberofvertices = numVertices;
114: PetscCall(PetscMalloc1(poly->numberofvertices, &poly->vertexlist));
115: for (v = 0; v < numVertices; ++v) {
116: const PetscInt vIdx = points[v] - vStart;
117: poly->vertexlist[v] = vIdx;
118: }
119: PetscCall(DMLabelGetValue(universal->label, f, &m));
120: if (m != defVal) in->facetmarkerlist[idx] = (int)m;
121: PetscCall(DMPlexRestoreTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points));
122: }
123: }
124: if (rank == 0) {
125: TetGenOpts t;
127: PetscCall(TetGenOptsInitialize(&t));
128: t.in = boundary; /* Should go away */
129: t.plc = 1;
130: t.quality = 1;
131: t.edgesout = 1;
132: t.zeroindex = 1;
133: t.quiet = 1;
134: t.verbose = verbose;
135: #if 0
136: #ifdef PETSC_HAVE_EGADS
137: /* Need to add in more TetGen code */
138: t.nobisect = 1; /* Add Y to preserve Surface Mesh for EGADS */
139: #endif
140: #endif
142: PetscCall(TetGenCheckOpts(&t));
143: PetscCall(TetGenTetrahedralize(&t, in, out));
144: }
145: {
146: const PetscInt numCorners = 4;
147: const PetscInt numCells = out->numberoftetrahedra;
148: const PetscInt numVertices = out->numberofpoints;
149: PetscReal *meshCoords = NULL;
150: PetscInt *cells = NULL;
152: if (sizeof(PetscReal) == sizeof(out->pointlist[0])) {
153: meshCoords = (PetscReal *)out->pointlist;
154: } else {
155: PetscCall(PetscMalloc1(dim * numVertices, &meshCoords));
156: for (PetscInt i = 0; i < dim * numVertices; ++i) meshCoords[i] = (PetscReal)out->pointlist[i];
157: }
158: if (sizeof(PetscInt) == sizeof(out->tetrahedronlist[0])) {
159: cells = (PetscInt *)out->tetrahedronlist;
160: } else {
161: PetscCall(PetscMalloc1(numCells * numCorners, &cells));
162: for (PetscInt i = 0; i < numCells * numCorners; i++) cells[i] = (PetscInt)out->tetrahedronlist[i];
163: }
165: PetscCall(DMPlexInvertCells_CTetgen(numCells, numCorners, cells));
166: PetscCall(DMPlexCreateFromCellListPetsc(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dm));
167: if (sizeof(PetscReal) != sizeof(out->pointlist[0])) PetscCall(PetscFree(meshCoords));
168: if (sizeof(PetscInt) != sizeof(out->tetrahedronlist[0])) PetscCall(PetscFree(cells));
170: /* Set labels */
171: PetscCall(DMUniversalLabelCreateLabels(universal, PETSC_TRUE, *dm));
172: for (v = 0; v < numVertices; ++v) {
173: if (out->pointmarkerlist[v]) PetscCall(DMUniversalLabelSetLabelValue(universal, *dm, PETSC_TRUE, v + numCells, out->pointmarkerlist[v]));
174: }
175: if (interpolate) {
176: for (PetscInt e = 0; e < out->numberofedges; e++) {
177: if (out->edgemarkerlist[e]) {
178: const PetscInt vertices[2] = {out->edgelist[e * 2 + 0] + numCells, out->edgelist[e * 2 + 1] + numCells};
179: const PetscInt *edges;
180: PetscInt numEdges;
182: PetscCall(DMPlexGetJoin(*dm, 2, vertices, &numEdges, &edges));
183: PetscCheck(numEdges == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %" PetscInt_FMT, numEdges);
184: PetscCall(DMUniversalLabelSetLabelValue(universal, *dm, PETSC_TRUE, edges[0], out->edgemarkerlist[e]));
185: PetscCall(DMPlexRestoreJoin(*dm, 2, vertices, &numEdges, &edges));
186: }
187: }
188: for (f = 0; f < out->numberoftrifaces; f++) {
189: if (out->trifacemarkerlist[f]) {
190: const PetscInt vertices[3] = {out->trifacelist[f * 3 + 0] + numCells, out->trifacelist[f * 3 + 1] + numCells, out->trifacelist[f * 3 + 2] + numCells};
191: const PetscInt *faces;
192: PetscInt numFaces;
194: PetscCall(DMPlexGetFullJoin(*dm, 3, vertices, &numFaces, &faces));
195: PetscCheck(numFaces == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %" PetscInt_FMT, numFaces);
196: PetscCall(DMUniversalLabelSetLabelValue(universal, *dm, PETSC_TRUE, faces[0], out->trifacemarkerlist[f]));
197: PetscCall(DMPlexRestoreJoin(*dm, 3, vertices, &numFaces, &faces));
198: }
199: }
200: }
202: #ifdef PETSC_HAVE_EGADS
203: {
204: DMLabel bodyLabel;
205: PetscContainer modelObj;
206: PetscInt cStart, cEnd, c, eStart, eEnd, fStart, fEnd;
207: ego *bodies;
208: ego model, geom;
209: int Nb, oclass, mtype, *senses;
211: /* Get Attached EGADS Model from Original DMPlex */
212: PetscCall(PetscObjectQuery((PetscObject)boundary, "EGADS Model", (PetscObject *)&modelObj));
213: if (modelObj) {
214: PetscCall(PetscContainerGetPointer(modelObj, &model));
215: PetscCall(EG_getTopology(model, &geom, &oclass, &mtype, NULL, &Nb, &bodies, &senses));
216: /* Transfer EGADS Model to Volumetric Mesh */
217: PetscCall(PetscObjectCompose((PetscObject)*dm, "EGADS Model", (PetscObject)modelObj));
219: /* Set Cell Labels */
220: PetscCall(DMGetLabel(*dm, "EGADS Body ID", &bodyLabel));
221: PetscCall(DMPlexGetHeightStratum(*dm, 0, &cStart, &cEnd));
222: PetscCall(DMPlexGetHeightStratum(*dm, 1, &fStart, &fEnd));
223: PetscCall(DMPlexGetDepthStratum(*dm, 1, &eStart, &eEnd));
225: for (c = cStart; c < cEnd; ++c) {
226: PetscReal centroid[3] = {0., 0., 0.};
227: PetscInt b;
229: /* Determine what body the cell's centroid is located in */
230: if (!interpolate) {
231: PetscSection coordSection;
232: Vec coordinates;
233: PetscScalar *coords = NULL;
234: PetscInt coordSize, s, d;
236: PetscCall(DMGetCoordinatesLocal(*dm, &coordinates));
237: PetscCall(DMGetCoordinateSection(*dm, &coordSection));
238: PetscCall(DMPlexVecGetClosure(*dm, coordSection, coordinates, c, &coordSize, &coords));
239: for (s = 0; s < coordSize; ++s)
240: for (d = 0; d < dim; ++d) centroid[d] += coords[s * dim + d];
241: PetscCall(DMPlexVecRestoreClosure(*dm, coordSection, coordinates, c, &coordSize, &coords));
242: } else PetscCall(DMPlexComputeCellGeometryFVM(*dm, c, NULL, centroid, NULL));
243: for (b = 0; b < Nb; ++b) {
244: if (EG_inTopology(bodies[b], centroid) == EGADS_SUCCESS) break;
245: }
246: if (b < Nb) {
247: PetscInt cval = b, eVal, fVal;
248: PetscInt *closure = NULL, Ncl, cl;
250: PetscCall(DMLabelSetValue(bodyLabel, c, cval));
251: PetscCall(DMPlexGetTransitiveClosure(*dm, c, PETSC_TRUE, &Ncl, &closure));
252: for (cl = 0; cl < Ncl; ++cl) {
253: const PetscInt p = closure[cl * 2];
255: if (p >= eStart && p < eEnd) {
256: PetscCall(DMLabelGetValue(bodyLabel, p, &eVal));
257: if (eVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
258: }
259: if (p >= fStart && p < fEnd) {
260: PetscCall(DMLabelGetValue(bodyLabel, p, &fVal));
261: if (fVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
262: }
263: }
264: PetscCall(DMPlexRestoreTransitiveClosure(*dm, c, PETSC_TRUE, &Ncl, &closure));
265: }
266: }
267: }
268: }
269: #endif
270: PetscCall(DMPlexSetRefinementUniform(*dm, PETSC_FALSE));
271: }
273: PetscCall(DMUniversalLabelDestroy(&universal));
274: PetscCall(PLCDestroy(&in));
275: PetscCall(PLCDestroy(&out));
276: PetscFunctionReturn(PETSC_SUCCESS);
277: }
279: PETSC_EXTERN PetscErrorCode DMPlexRefine_CTetgen(DM dm, PetscReal *maxVolumes, DM *dmRefined)
280: {
281: MPI_Comm comm;
282: const PetscInt dim = 3;
283: PLC *in, *out;
284: DMUniversalLabel universal;
285: PetscInt vStart, vEnd, v, eStart, eEnd, e, fStart, fEnd, f, cStart, cEnd, c, defVal, verbose = 0;
286: DMPlexInterpolatedFlag isInterpolated;
287: PetscMPIInt rank;
289: PetscFunctionBegin;
290: PetscCall(PetscOptionsGetInt(NULL, ((PetscObject)dm)->prefix, "-ctetgen_verbose", &verbose, NULL));
291: PetscCall(PetscObjectGetComm((PetscObject)dm, &comm));
292: PetscCallMPI(MPI_Comm_rank(comm, &rank));
293: PetscCall(DMPlexIsInterpolatedCollective(dm, &isInterpolated));
294: PetscCall(DMUniversalLabelCreate(dm, &universal));
295: PetscCall(DMLabelGetDefaultValue(universal->label, &defVal));
297: PetscCall(PLCCreate(&in));
298: PetscCall(PLCCreate(&out));
300: PetscCall(DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd));
301: in->numberofpoints = vEnd - vStart;
302: if (in->numberofpoints > 0) {
303: PetscSection coordSection;
304: Vec coordinates;
305: PetscScalar *array;
307: PetscCall(PetscMalloc1(in->numberofpoints * dim, &in->pointlist));
308: PetscCall(PetscCalloc1(in->numberofpoints, &in->pointmarkerlist));
309: PetscCall(DMGetCoordinatesLocal(dm, &coordinates));
310: PetscCall(DMGetCoordinateSection(dm, &coordSection));
311: PetscCall(VecGetArray(coordinates, &array));
312: for (v = vStart; v < vEnd; ++v) {
313: const PetscInt idx = v - vStart;
314: PetscInt off, d, m;
316: PetscCall(PetscSectionGetOffset(coordSection, v, &off));
317: for (d = 0; d < dim; ++d) in->pointlist[idx * dim + d] = PetscRealPart(array[off + d]);
318: PetscCall(DMLabelGetValue(universal->label, v, &m));
319: if (m != defVal) in->pointmarkerlist[idx] = (int)m;
320: }
321: PetscCall(VecRestoreArray(coordinates, &array));
322: }
324: PetscCall(DMPlexGetDepthStratum(dm, 1, &eStart, &eEnd));
325: in->numberofedges = eEnd - eStart;
326: if (isInterpolated == DMPLEX_INTERPOLATED_FULL && in->numberofedges > 0) {
327: PetscCall(PetscMalloc1(in->numberofedges * 2, &in->edgelist));
328: PetscCall(PetscMalloc1(in->numberofedges, &in->edgemarkerlist));
329: for (e = eStart; e < eEnd; ++e) {
330: const PetscInt idx = e - eStart;
331: const PetscInt *cone;
332: PetscInt coneSize, val;
334: PetscCall(DMPlexGetConeSize(dm, e, &coneSize));
335: PetscCall(DMPlexGetCone(dm, e, &cone));
336: in->edgelist[idx * 2] = cone[0] - vStart;
337: in->edgelist[idx * 2 + 1] = cone[1] - vStart;
339: PetscCall(DMLabelGetValue(universal->label, e, &val));
340: if (val != defVal) in->edgemarkerlist[idx] = (int)val;
341: }
342: }
344: PetscCall(DMPlexGetHeightStratum(dm, 1, &fStart, &fEnd));
345: in->numberoftrifaces = 0;
346: for (f = fStart; f < fEnd; ++f) {
347: PetscInt supportSize;
349: PetscCall(DMPlexGetSupportSize(dm, f, &supportSize));
350: if (supportSize == 1) ++in->numberoftrifaces;
351: }
352: if (isInterpolated == DMPLEX_INTERPOLATED_FULL && in->numberoftrifaces > 0) {
353: PetscInt tf = 0;
355: PetscCall(PetscMalloc1(in->numberoftrifaces * 3, &in->trifacelist));
356: PetscCall(PetscMalloc1(in->numberoftrifaces, &in->trifacemarkerlist));
357: for (f = fStart; f < fEnd; ++f) {
358: PetscInt *points = NULL;
359: PetscInt supportSize, numPoints, p, Nv = 0, val;
361: PetscCall(DMPlexGetSupportSize(dm, f, &supportSize));
362: if (supportSize != 1) continue;
363: PetscCall(DMPlexGetTransitiveClosure(dm, f, PETSC_TRUE, &numPoints, &points));
364: for (p = 0; p < numPoints * 2; p += 2) {
365: const PetscInt point = points[p];
366: if ((point >= vStart) && (point < vEnd)) in->trifacelist[tf * 3 + Nv++] = point - vStart;
367: }
368: PetscCall(DMPlexRestoreTransitiveClosure(dm, f, PETSC_TRUE, &numPoints, &points));
369: PetscCheck(Nv == 3, PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Face %" PetscInt_FMT " has %" PetscInt_FMT " vertices, not 3", f, Nv);
370: PetscCall(DMLabelGetValue(universal->label, f, &val));
371: if (val != defVal) in->trifacemarkerlist[tf] = (int)val;
372: ++tf;
373: }
374: }
376: PetscCall(DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd));
377: in->numberofcorners = 4;
378: in->numberoftetrahedra = cEnd - cStart;
379: in->tetrahedronvolumelist = maxVolumes;
380: if (in->numberoftetrahedra > 0) {
381: PetscCall(PetscMalloc1(in->numberoftetrahedra * in->numberofcorners, &in->tetrahedronlist));
382: for (c = cStart; c < cEnd; ++c) {
383: const PetscInt idx = c - cStart;
384: PetscInt *closure = NULL;
385: PetscInt closureSize;
387: PetscCall(DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure));
388: PetscCheck((closureSize == 5) || (closureSize == 15), comm, PETSC_ERR_ARG_WRONG, "Mesh has cell which is not a tetrahedron, %" PetscInt_FMT " vertices in closure", closureSize);
389: for (v = 0; v < 4; ++v) in->tetrahedronlist[idx * in->numberofcorners + v] = closure[(v + closureSize - 4) * 2] - vStart;
390: PetscCall(DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure));
391: }
392: }
394: if (rank == 0) {
395: TetGenOpts t;
397: PetscCall(TetGenOptsInitialize(&t));
399: t.in = dm; /* Should go away */
400: t.refine = 1;
401: t.varvolume = 1;
402: t.quality = 1;
403: t.edgesout = 1;
404: t.zeroindex = 1;
405: t.quiet = 1;
406: t.verbose = verbose; /* Change this */
408: PetscCall(TetGenCheckOpts(&t));
409: PetscCall(TetGenTetrahedralize(&t, in, out));
410: }
412: in->tetrahedronvolumelist = NULL;
413: {
414: const PetscInt numCorners = 4;
415: const PetscInt numCells = out->numberoftetrahedra;
416: const PetscInt numVertices = out->numberofpoints;
417: PetscReal *meshCoords = NULL;
418: PetscInt *cells = NULL;
419: PetscBool interpolate = isInterpolated == DMPLEX_INTERPOLATED_FULL ? PETSC_TRUE : PETSC_FALSE;
421: if (sizeof(PetscReal) == sizeof(out->pointlist[0])) {
422: meshCoords = (PetscReal *)out->pointlist;
423: } else {
424: PetscCall(PetscMalloc1(dim * numVertices, &meshCoords));
425: for (PetscInt i = 0; i < dim * numVertices; ++i) meshCoords[i] = (PetscReal)out->pointlist[i];
426: }
427: if (sizeof(PetscInt) == sizeof(out->tetrahedronlist[0])) {
428: cells = (PetscInt *)out->tetrahedronlist;
429: } else {
430: PetscCall(PetscMalloc1(numCells * numCorners, &cells));
431: for (PetscInt i = 0; i < numCells * numCorners; ++i) cells[i] = (PetscInt)out->tetrahedronlist[i];
432: }
434: PetscCall(DMPlexInvertCells_CTetgen(numCells, numCorners, cells));
435: PetscCall(DMPlexCreateFromCellListPetsc(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dmRefined));
436: if (sizeof(PetscReal) != sizeof(out->pointlist[0])) PetscCall(PetscFree(meshCoords));
437: if (sizeof(PetscInt) != sizeof(out->tetrahedronlist[0])) PetscCall(PetscFree(cells));
439: /* Set labels */
440: PetscCall(DMUniversalLabelCreateLabels(universal, PETSC_TRUE, *dmRefined));
441: for (v = 0; v < numVertices; ++v) {
442: if (out->pointmarkerlist[v]) PetscCall(DMUniversalLabelSetLabelValue(universal, *dmRefined, PETSC_TRUE, v + numCells, out->pointmarkerlist[v]));
443: }
444: if (interpolate) {
445: for (PetscInt e = 0; e < out->numberofedges; e++) {
446: if (out->edgemarkerlist[e]) {
447: const PetscInt vertices[2] = {out->edgelist[e * 2 + 0] + numCells, out->edgelist[e * 2 + 1] + numCells};
448: const PetscInt *edges;
449: PetscInt numEdges;
451: PetscCall(DMPlexGetJoin(*dmRefined, 2, vertices, &numEdges, &edges));
452: PetscCheck(numEdges == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %" PetscInt_FMT, numEdges);
453: PetscCall(DMUniversalLabelSetLabelValue(universal, *dmRefined, PETSC_TRUE, edges[0], out->edgemarkerlist[e]));
454: PetscCall(DMPlexRestoreJoin(*dmRefined, 2, vertices, &numEdges, &edges));
455: }
456: }
457: for (PetscInt f = 0; f < out->numberoftrifaces; f++) {
458: if (out->trifacemarkerlist[f]) {
459: const PetscInt vertices[3] = {out->trifacelist[f * 3 + 0] + numCells, out->trifacelist[f * 3 + 1] + numCells, out->trifacelist[f * 3 + 2] + numCells};
460: const PetscInt *faces;
461: PetscInt numFaces;
463: PetscCall(DMPlexGetFullJoin(*dmRefined, 3, vertices, &numFaces, &faces));
464: PetscCheck(numFaces == 1, PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %" PetscInt_FMT, numFaces);
465: PetscCall(DMUniversalLabelSetLabelValue(universal, *dmRefined, PETSC_TRUE, faces[0], out->trifacemarkerlist[f]));
466: PetscCall(DMPlexRestoreJoin(*dmRefined, 3, vertices, &numFaces, &faces));
467: }
468: }
469: }
471: #ifdef PETSC_HAVE_EGADS
472: {
473: DMLabel bodyLabel;
474: PetscContainer modelObj;
475: PetscInt cStart, cEnd, c, eStart, eEnd, fStart, fEnd;
476: ego *bodies;
477: ego model, geom;
478: int Nb, oclass, mtype, *senses;
480: /* Get Attached EGADS Model from Original DMPlex */
481: PetscCall(PetscObjectQuery((PetscObject)dm, "EGADS Model", (PetscObject *)&modelObj));
482: if (modelObj) {
483: PetscCall(PetscContainerGetPointer(modelObj, &model));
484: PetscCall(EG_getTopology(model, &geom, &oclass, &mtype, NULL, &Nb, &bodies, &senses));
485: /* Transfer EGADS Model to Volumetric Mesh */
486: PetscCall(PetscObjectCompose((PetscObject)*dmRefined, "EGADS Model", (PetscObject)modelObj));
488: /* Set Cell Labels */
489: PetscCall(DMGetLabel(*dmRefined, "EGADS Body ID", &bodyLabel));
490: PetscCall(DMPlexGetHeightStratum(*dmRefined, 0, &cStart, &cEnd));
491: PetscCall(DMPlexGetHeightStratum(*dmRefined, 1, &fStart, &fEnd));
492: PetscCall(DMPlexGetDepthStratum(*dmRefined, 1, &eStart, &eEnd));
494: for (c = cStart; c < cEnd; ++c) {
495: PetscReal centroid[3] = {0., 0., 0.};
496: PetscInt b;
498: /* Determine what body the cell's centroid is located in */
499: if (!interpolate) {
500: PetscSection coordSection;
501: Vec coordinates;
502: PetscScalar *coords = NULL;
503: PetscInt coordSize, s, d;
505: PetscCall(DMGetCoordinatesLocal(*dmRefined, &coordinates));
506: PetscCall(DMGetCoordinateSection(*dmRefined, &coordSection));
507: PetscCall(DMPlexVecGetClosure(*dmRefined, coordSection, coordinates, c, &coordSize, &coords));
508: for (s = 0; s < coordSize; ++s)
509: for (d = 0; d < dim; ++d) centroid[d] += coords[s * dim + d];
510: PetscCall(DMPlexVecRestoreClosure(*dmRefined, coordSection, coordinates, c, &coordSize, &coords));
511: } else PetscCall(DMPlexComputeCellGeometryFVM(*dmRefined, c, NULL, centroid, NULL));
512: for (b = 0; b < Nb; ++b) {
513: if (EG_inTopology(bodies[b], centroid) == EGADS_SUCCESS) break;
514: }
515: if (b < Nb) {
516: PetscInt cval = b, eVal, fVal;
517: PetscInt *closure = NULL, Ncl, cl;
519: PetscCall(DMLabelSetValue(bodyLabel, c, cval));
520: PetscCall(DMPlexGetTransitiveClosure(*dmRefined, c, PETSC_TRUE, &Ncl, &closure));
521: for (cl = 0; cl < Ncl; cl += 2) {
522: const PetscInt p = closure[cl];
524: if (p >= eStart && p < eEnd) {
525: PetscCall(DMLabelGetValue(bodyLabel, p, &eVal));
526: if (eVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
527: }
528: if (p >= fStart && p < fEnd) {
529: PetscCall(DMLabelGetValue(bodyLabel, p, &fVal));
530: if (fVal < 0) PetscCall(DMLabelSetValue(bodyLabel, p, cval));
531: }
532: }
533: PetscCall(DMPlexRestoreTransitiveClosure(*dmRefined, c, PETSC_TRUE, &Ncl, &closure));
534: }
535: }
536: }
537: }
538: #endif
539: PetscCall(DMPlexSetRefinementUniform(*dmRefined, PETSC_FALSE));
540: }
541: PetscCall(DMUniversalLabelDestroy(&universal));
542: PetscCall(PLCDestroy(&in));
543: PetscCall(PLCDestroy(&out));
544: PetscFunctionReturn(PETSC_SUCCESS);
545: }