xref: /petsc/src/dm/impls/plex/plexgenerate.c (revision 77a085f536a8ca981e118ff51d54069b94dd91d3) 
1 #include <petsc/private/dmpleximpl.h>   /*I      "petscdmplex.h"   I*/
2 
3 PetscErrorCode DMPlexInvertCell_Internal(PetscInt dim, PetscInt numCorners, PetscInt cone[])
4 {
5   int tmpc;
6 
7   PetscFunctionBegin;
8   if (dim != 3) PetscFunctionReturn(0);
9   switch (numCorners) {
10   case 4:
11     tmpc    = cone[0];
12     cone[0] = cone[1];
13     cone[1] = tmpc;
14     break;
15   case 8:
16     tmpc    = cone[1];
17     cone[1] = cone[3];
18     cone[3] = tmpc;
19     break;
20   default: break;
21   }
22   PetscFunctionReturn(0);
23 }
24 
25 /*@C
26   DMPlexInvertCell - This flips tetrahedron and hexahedron orientation since Plex stores them internally with outward normals. Other cells are left untouched.
27 
28   Input Parameters:
29 + numCorners - The number of vertices in a cell
30 - cone - The incoming cone
31 
32   Output Parameter:
33 . cone - The inverted cone (in-place)
34 
35   Level: developer
36 
37 .seealso: DMPlexGenerate()
38 @*/
39 PetscErrorCode DMPlexInvertCell(PetscInt dim, PetscInt numCorners, int cone[])
40 {
41   int tmpc;
42 
43   PetscFunctionBegin;
44   if (dim != 3) PetscFunctionReturn(0);
45   switch (numCorners) {
46   case 4:
47     tmpc    = cone[0];
48     cone[0] = cone[1];
49     cone[1] = tmpc;
50     break;
51   case 8:
52     tmpc    = cone[1];
53     cone[1] = cone[3];
54     cone[3] = tmpc;
55     break;
56   default: break;
57   }
58   PetscFunctionReturn(0);
59 }
60 
61 /* This is to fix the tetrahedron orientation from TetGen */
62 PETSC_UNUSED static PetscErrorCode DMPlexInvertCells_Internal(PetscInt dim, PetscInt numCells, PetscInt numCorners, int cells[])
63 {
64   PetscInt       bound = numCells*numCorners, coff;
65   PetscErrorCode ierr;
66 
67   PetscFunctionBegin;
68   for (coff = 0; coff < bound; coff += numCorners) {
69     ierr = DMPlexInvertCell(dim, numCorners, &cells[coff]);CHKERRQ(ierr);
70   }
71   PetscFunctionReturn(0);
72 }
73 
74 /*@
75   DMPlexTriangleSetOptions - Set the options used for the Triangle mesh generator
76 
77   Not Collective
78 
79   Inputs Parameters:
80 + dm - The DMPlex object
81 - opts - The command line options
82 
83   Level: developer
84 
85 .keywords: mesh, points
86 .seealso: DMPlexTetgenSetOptions(), DMPlexGenerate()
87 @*/
88 PetscErrorCode DMPlexTriangleSetOptions(DM dm, const char *opts)
89 {
90   DM_Plex       *mesh = (DM_Plex*) dm->data;
91   PetscErrorCode ierr;
92 
93   PetscFunctionBegin;
94   PetscValidHeaderSpecific(dm, DM_CLASSID, 1);
95   PetscValidPointer(opts, 2);
96   ierr = PetscFree(mesh->triangleOpts);CHKERRQ(ierr);
97   ierr = PetscStrallocpy(opts, &mesh->triangleOpts);CHKERRQ(ierr);
98   PetscFunctionReturn(0);
99 }
100 
101 /*@
102   DMPlexTetgenSetOptions - Set the options used for the Tetgen mesh generator
103 
104   Not Collective
105 
106   Inputs Parameters:
107 + dm - The DMPlex object
108 - opts - The command line options
109 
110   Level: developer
111 
112 .keywords: mesh, points
113 .seealso: DMPlexTriangleSetOptions(), DMPlexGenerate()
114 @*/
115 PetscErrorCode DMPlexTetgenSetOptions(DM dm, const char *opts)
116 {
117   DM_Plex       *mesh = (DM_Plex*) dm->data;
118   PetscErrorCode ierr;
119 
120   PetscFunctionBegin;
121   PetscValidHeaderSpecific(dm, DM_CLASSID, 1);
122   PetscValidPointer(opts, 2);
123   ierr = PetscFree(mesh->tetgenOpts);CHKERRQ(ierr);
124   ierr = PetscStrallocpy(opts, &mesh->tetgenOpts);CHKERRQ(ierr);
125   PetscFunctionReturn(0);
126 }
127 
128 #if defined(PETSC_HAVE_TRIANGLE)
129 #include <triangle.h>
130 
131 static PetscErrorCode InitInput_Triangle(struct triangulateio *inputCtx)
132 {
133   PetscFunctionBegin;
134   inputCtx->numberofpoints             = 0;
135   inputCtx->numberofpointattributes    = 0;
136   inputCtx->pointlist                  = NULL;
137   inputCtx->pointattributelist         = NULL;
138   inputCtx->pointmarkerlist            = NULL;
139   inputCtx->numberofsegments           = 0;
140   inputCtx->segmentlist                = NULL;
141   inputCtx->segmentmarkerlist          = NULL;
142   inputCtx->numberoftriangleattributes = 0;
143   inputCtx->trianglelist               = NULL;
144   inputCtx->numberofholes              = 0;
145   inputCtx->holelist                   = NULL;
146   inputCtx->numberofregions            = 0;
147   inputCtx->regionlist                 = NULL;
148   PetscFunctionReturn(0);
149 }
150 
151 static PetscErrorCode InitOutput_Triangle(struct triangulateio *outputCtx)
152 {
153   PetscFunctionBegin;
154   outputCtx->numberofpoints        = 0;
155   outputCtx->pointlist             = NULL;
156   outputCtx->pointattributelist    = NULL;
157   outputCtx->pointmarkerlist       = NULL;
158   outputCtx->numberoftriangles     = 0;
159   outputCtx->trianglelist          = NULL;
160   outputCtx->triangleattributelist = NULL;
161   outputCtx->neighborlist          = NULL;
162   outputCtx->segmentlist           = NULL;
163   outputCtx->segmentmarkerlist     = NULL;
164   outputCtx->numberofedges         = 0;
165   outputCtx->edgelist              = NULL;
166   outputCtx->edgemarkerlist        = NULL;
167   PetscFunctionReturn(0);
168 }
169 
170 static PetscErrorCode FiniOutput_Triangle(struct triangulateio *outputCtx)
171 {
172   PetscFunctionBegin;
173   free(outputCtx->pointlist);
174   free(outputCtx->pointmarkerlist);
175   free(outputCtx->segmentlist);
176   free(outputCtx->segmentmarkerlist);
177   free(outputCtx->edgelist);
178   free(outputCtx->edgemarkerlist);
179   free(outputCtx->trianglelist);
180   free(outputCtx->neighborlist);
181   PetscFunctionReturn(0);
182 }
183 
184 static PetscErrorCode DMPlexGenerate_Triangle(DM boundary, PetscBool interpolate, DM *dm)
185 {
186   MPI_Comm             comm;
187   DM_Plex             *mesh             = (DM_Plex *) boundary->data;
188   PetscInt             dim              = 2;
189   const PetscBool      createConvexHull = PETSC_FALSE;
190   const PetscBool      constrained      = PETSC_FALSE;
191   const char          *labelName        = "marker";
192   struct triangulateio in;
193   struct triangulateio out;
194   DMLabel              label;
195   PetscInt             vStart, vEnd, v, eStart, eEnd, e;
196   PetscMPIInt          rank;
197   PetscErrorCode       ierr;
198 
199   PetscFunctionBegin;
200   ierr = PetscObjectGetComm((PetscObject)boundary,&comm);CHKERRQ(ierr);
201   ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr);
202   ierr = InitInput_Triangle(&in);CHKERRQ(ierr);
203   ierr = InitOutput_Triangle(&out);CHKERRQ(ierr);
204   ierr = DMPlexGetDepthStratum(boundary, 0, &vStart, &vEnd);CHKERRQ(ierr);
205   ierr = DMGetLabel(boundary, labelName, &label);CHKERRQ(ierr);
206 
207   in.numberofpoints = vEnd - vStart;
208   if (in.numberofpoints > 0) {
209     PetscSection coordSection;
210     Vec          coordinates;
211     PetscScalar *array;
212 
213     ierr = PetscMalloc1(in.numberofpoints*dim, &in.pointlist);CHKERRQ(ierr);
214     ierr = PetscMalloc1(in.numberofpoints, &in.pointmarkerlist);CHKERRQ(ierr);
215     ierr = DMGetCoordinatesLocal(boundary, &coordinates);CHKERRQ(ierr);
216     ierr = DMGetCoordinateSection(boundary, &coordSection);CHKERRQ(ierr);
217     ierr = VecGetArray(coordinates, &array);CHKERRQ(ierr);
218     for (v = vStart; v < vEnd; ++v) {
219       const PetscInt idx = v - vStart;
220       PetscInt       off, d;
221 
222       ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr);
223       for (d = 0; d < dim; ++d) {
224         in.pointlist[idx*dim + d] = PetscRealPart(array[off+d]);
225       }
226       if (label) {ierr = DMLabelGetValue(label, v, &in.pointmarkerlist[idx]);CHKERRQ(ierr);}
227     }
228     ierr = VecRestoreArray(coordinates, &array);CHKERRQ(ierr);
229   }
230   ierr  = DMPlexGetHeightStratum(boundary, 0, &eStart, &eEnd);CHKERRQ(ierr);
231   in.numberofsegments = eEnd - eStart;
232   if (in.numberofsegments > 0) {
233     ierr = PetscMalloc1(in.numberofsegments*2, &in.segmentlist);CHKERRQ(ierr);
234     ierr = PetscMalloc1(in.numberofsegments, &in.segmentmarkerlist);CHKERRQ(ierr);
235     for (e = eStart; e < eEnd; ++e) {
236       const PetscInt  idx = e - eStart;
237       const PetscInt *cone;
238 
239       ierr = DMPlexGetCone(boundary, e, &cone);CHKERRQ(ierr);
240 
241       in.segmentlist[idx*2+0] = cone[0] - vStart;
242       in.segmentlist[idx*2+1] = cone[1] - vStart;
243 
244       if (label) {ierr = DMLabelGetValue(label, e, &in.segmentmarkerlist[idx]);CHKERRQ(ierr);}
245     }
246   }
247 #if 0 /* Do not currently support holes */
248   PetscReal *holeCoords;
249   PetscInt   h, d;
250 
251   ierr = DMPlexGetHoles(boundary, &in.numberofholes, &holeCords);CHKERRQ(ierr);
252   if (in.numberofholes > 0) {
253     ierr = PetscMalloc1(in.numberofholes*dim, &in.holelist);CHKERRQ(ierr);
254     for (h = 0; h < in.numberofholes; ++h) {
255       for (d = 0; d < dim; ++d) {
256         in.holelist[h*dim+d] = holeCoords[h*dim+d];
257       }
258     }
259   }
260 #endif
261   if (!rank) {
262     char args[32];
263 
264     /* Take away 'Q' for verbose output */
265     ierr = PetscStrcpy(args, "pqezQ");CHKERRQ(ierr);
266     if (createConvexHull)   {ierr = PetscStrcat(args, "c");CHKERRQ(ierr);}
267     if (constrained)        {ierr = PetscStrcpy(args, "zepDQ");CHKERRQ(ierr);}
268     if (mesh->triangleOpts) {triangulate(mesh->triangleOpts, &in, &out, NULL);}
269     else                    {triangulate(args, &in, &out, NULL);}
270   }
271   ierr = PetscFree(in.pointlist);CHKERRQ(ierr);
272   ierr = PetscFree(in.pointmarkerlist);CHKERRQ(ierr);
273   ierr = PetscFree(in.segmentlist);CHKERRQ(ierr);
274   ierr = PetscFree(in.segmentmarkerlist);CHKERRQ(ierr);
275   ierr = PetscFree(in.holelist);CHKERRQ(ierr);
276 
277   {
278     DMLabel        glabel      = NULL;
279     const PetscInt numCorners  = 3;
280     const PetscInt numCells    = out.numberoftriangles;
281     const PetscInt numVertices = out.numberofpoints;
282     const int     *cells      = out.trianglelist;
283     const double  *meshCoords = out.pointlist;
284 
285     ierr = DMPlexCreateFromCellList(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dm);CHKERRQ(ierr);
286     if (label) {ierr = DMCreateLabel(*dm, labelName); ierr = DMGetLabel(*dm, labelName, &glabel);}
287     /* Set labels */
288     for (v = 0; v < numVertices; ++v) {
289       if (out.pointmarkerlist[v]) {
290         if (glabel) {ierr = DMLabelSetValue(glabel, v+numCells, out.pointmarkerlist[v]);CHKERRQ(ierr);}
291       }
292     }
293     if (interpolate) {
294       for (e = 0; e < out.numberofedges; e++) {
295         if (out.edgemarkerlist[e]) {
296           const PetscInt  vertices[2] = {out.edgelist[e*2+0]+numCells, out.edgelist[e*2+1]+numCells};
297           const PetscInt *edges;
298           PetscInt        numEdges;
299 
300           ierr = DMPlexGetJoin(*dm, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
301           if (numEdges != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %D", numEdges);
302           if (glabel) {ierr = DMLabelSetValue(glabel, edges[0], out.edgemarkerlist[e]);CHKERRQ(ierr);}
303           ierr = DMPlexRestoreJoin(*dm, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
304         }
305       }
306     }
307     ierr = DMPlexSetRefinementUniform(*dm, PETSC_FALSE);CHKERRQ(ierr);
308   }
309 #if 0 /* Do not currently support holes */
310   ierr = DMPlexCopyHoles(*dm, boundary);CHKERRQ(ierr);
311 #endif
312   ierr = FiniOutput_Triangle(&out);CHKERRQ(ierr);
313   PetscFunctionReturn(0);
314 }
315 
316 static PetscErrorCode DMPlexRefine_Triangle(DM dm, double *maxVolumes, DM *dmRefined)
317 {
318   MPI_Comm             comm;
319   PetscInt             dim       = 2;
320   const char          *labelName = "marker";
321   struct triangulateio in;
322   struct triangulateio out;
323   DMLabel              label;
324   PetscInt             vStart, vEnd, v, cStart, cEnd, c, depth, depthGlobal;
325   PetscMPIInt          rank;
326   PetscErrorCode       ierr;
327 
328   PetscFunctionBegin;
329   ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr);
330   ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr);
331   ierr = InitInput_Triangle(&in);CHKERRQ(ierr);
332   ierr = InitOutput_Triangle(&out);CHKERRQ(ierr);
333   ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr);
334   ierr = MPIU_Allreduce(&depth, &depthGlobal, 1, MPIU_INT, MPI_MAX, comm);CHKERRQ(ierr);
335   ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr);
336   ierr = DMGetLabel(dm, labelName, &label);CHKERRQ(ierr);
337 
338   in.numberofpoints = vEnd - vStart;
339   if (in.numberofpoints > 0) {
340     PetscSection coordSection;
341     Vec          coordinates;
342     PetscScalar *array;
343 
344     ierr = PetscMalloc1(in.numberofpoints*dim, &in.pointlist);CHKERRQ(ierr);
345     ierr = PetscMalloc1(in.numberofpoints, &in.pointmarkerlist);CHKERRQ(ierr);
346     ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr);
347     ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr);
348     ierr = VecGetArray(coordinates, &array);CHKERRQ(ierr);
349     for (v = vStart; v < vEnd; ++v) {
350       const PetscInt idx = v - vStart;
351       PetscInt       off, d;
352 
353       ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr);
354       for (d = 0; d < dim; ++d) {
355         in.pointlist[idx*dim + d] = PetscRealPart(array[off+d]);
356       }
357       if (label) {ierr = DMLabelGetValue(label, v, &in.pointmarkerlist[idx]);CHKERRQ(ierr);}
358     }
359     ierr = VecRestoreArray(coordinates, &array);CHKERRQ(ierr);
360   }
361   ierr  = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr);
362 
363   in.numberofcorners   = 3;
364   in.numberoftriangles = cEnd - cStart;
365 
366   in.trianglearealist  = (double*) maxVolumes;
367   if (in.numberoftriangles > 0) {
368     ierr = PetscMalloc1(in.numberoftriangles*in.numberofcorners, &in.trianglelist);CHKERRQ(ierr);
369     for (c = cStart; c < cEnd; ++c) {
370       const PetscInt idx      = c - cStart;
371       PetscInt      *closure = NULL;
372       PetscInt       closureSize;
373 
374       ierr = DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr);
375       if ((closureSize != 4) && (closureSize != 7)) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Mesh has cell which is not a triangle, %D vertices in closure", closureSize);
376       for (v = 0; v < 3; ++v) {
377         in.trianglelist[idx*in.numberofcorners + v] = closure[(v+closureSize-3)*2] - vStart;
378       }
379       ierr = DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr);
380     }
381   }
382   /* TODO: Segment markers are missing on input */
383 #if 0 /* Do not currently support holes */
384   PetscReal *holeCoords;
385   PetscInt   h, d;
386 
387   ierr = DMPlexGetHoles(boundary, &in.numberofholes, &holeCords);CHKERRQ(ierr);
388   if (in.numberofholes > 0) {
389     ierr = PetscMalloc1(in.numberofholes*dim, &in.holelist);CHKERRQ(ierr);
390     for (h = 0; h < in.numberofholes; ++h) {
391       for (d = 0; d < dim; ++d) {
392         in.holelist[h*dim+d] = holeCoords[h*dim+d];
393       }
394     }
395   }
396 #endif
397   if (!rank) {
398     char args[32];
399 
400     /* Take away 'Q' for verbose output */
401     ierr = PetscStrcpy(args, "pqezQra");CHKERRQ(ierr);
402     triangulate(args, &in, &out, NULL);
403   }
404   ierr = PetscFree(in.pointlist);CHKERRQ(ierr);
405   ierr = PetscFree(in.pointmarkerlist);CHKERRQ(ierr);
406   ierr = PetscFree(in.segmentlist);CHKERRQ(ierr);
407   ierr = PetscFree(in.segmentmarkerlist);CHKERRQ(ierr);
408   ierr = PetscFree(in.trianglelist);CHKERRQ(ierr);
409 
410   {
411     DMLabel        rlabel      = NULL;
412     const PetscInt numCorners  = 3;
413     const PetscInt numCells    = out.numberoftriangles;
414     const PetscInt numVertices = out.numberofpoints;
415     const int     *cells      = out.trianglelist;
416     const double  *meshCoords = out.pointlist;
417     PetscBool      interpolate = depthGlobal > 1 ? PETSC_TRUE : PETSC_FALSE;
418 
419     ierr = DMPlexCreateFromCellList(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dmRefined);CHKERRQ(ierr);
420     if (label) {ierr = DMCreateLabel(*dmRefined, labelName); ierr = DMGetLabel(*dmRefined, labelName, &rlabel);}
421     /* Set labels */
422     for (v = 0; v < numVertices; ++v) {
423       if (out.pointmarkerlist[v]) {
424         if (rlabel) {ierr = DMLabelSetValue(rlabel, v+numCells, out.pointmarkerlist[v]);CHKERRQ(ierr);}
425       }
426     }
427     if (interpolate) {
428       PetscInt e;
429 
430       for (e = 0; e < out.numberofedges; e++) {
431         if (out.edgemarkerlist[e]) {
432           const PetscInt  vertices[2] = {out.edgelist[e*2+0]+numCells, out.edgelist[e*2+1]+numCells};
433           const PetscInt *edges;
434           PetscInt        numEdges;
435 
436           ierr = DMPlexGetJoin(*dmRefined, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
437           if (numEdges != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %D", numEdges);
438           if (rlabel) {ierr = DMLabelSetValue(rlabel, edges[0], out.edgemarkerlist[e]);CHKERRQ(ierr);}
439           ierr = DMPlexRestoreJoin(*dmRefined, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
440         }
441       }
442     }
443     ierr = DMPlexSetRefinementUniform(*dmRefined, PETSC_FALSE);CHKERRQ(ierr);
444   }
445 #if 0 /* Do not currently support holes */
446   ierr = DMPlexCopyHoles(*dm, boundary);CHKERRQ(ierr);
447 #endif
448   ierr = FiniOutput_Triangle(&out);CHKERRQ(ierr);
449   PetscFunctionReturn(0);
450 }
451 #endif /* PETSC_HAVE_TRIANGLE */
452 
453 #if defined(PETSC_HAVE_TETGEN)
454 #include <tetgen.h>
455 static PetscErrorCode DMPlexGenerate_Tetgen(DM boundary, PetscBool interpolate, DM *dm)
456 {
457   MPI_Comm       comm;
458   DM_Plex       *mesh      = (DM_Plex *) boundary->data;
459   const PetscInt dim       = 3;
460   const char    *labelName = "marker";
461   ::tetgenio     in;
462   ::tetgenio     out;
463   DMLabel        label;
464   PetscInt       vStart, vEnd, v, fStart, fEnd, f;
465   PetscMPIInt    rank;
466   PetscErrorCode ierr;
467 
468   PetscFunctionBegin;
469   ierr = PetscObjectGetComm((PetscObject)boundary,&comm);CHKERRQ(ierr);
470   ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr);
471   ierr = DMPlexGetDepthStratum(boundary, 0, &vStart, &vEnd);CHKERRQ(ierr);
472   ierr = DMGetLabel(boundary, labelName, &label);CHKERRQ(ierr);
473 
474   in.numberofpoints = vEnd - vStart;
475   if (in.numberofpoints > 0) {
476     PetscSection coordSection;
477     Vec          coordinates;
478     PetscScalar *array;
479 
480     in.pointlist       = new double[in.numberofpoints*dim];
481     in.pointmarkerlist = new int[in.numberofpoints];
482 
483     ierr = DMGetCoordinatesLocal(boundary, &coordinates);CHKERRQ(ierr);
484     ierr = DMGetCoordinateSection(boundary, &coordSection);CHKERRQ(ierr);
485     ierr = VecGetArray(coordinates, &array);CHKERRQ(ierr);
486     for (v = vStart; v < vEnd; ++v) {
487       const PetscInt idx = v - vStart;
488       PetscInt       off, d;
489 
490       ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr);
491       for (d = 0; d < dim; ++d) in.pointlist[idx*dim + d] = PetscRealPart(array[off+d]);
492       if (label) {ierr = DMLabelGetValue(label, v, &in.pointmarkerlist[idx]);CHKERRQ(ierr);}
493     }
494     ierr = VecRestoreArray(coordinates, &array);CHKERRQ(ierr);
495   }
496   ierr  = DMPlexGetHeightStratum(boundary, 0, &fStart, &fEnd);CHKERRQ(ierr);
497 
498   in.numberoffacets = fEnd - fStart;
499   if (in.numberoffacets > 0) {
500     in.facetlist       = new tetgenio::facet[in.numberoffacets];
501     in.facetmarkerlist = new int[in.numberoffacets];
502     for (f = fStart; f < fEnd; ++f) {
503       const PetscInt idx     = f - fStart;
504       PetscInt      *points = NULL, numPoints, p, numVertices = 0, v;
505 
506       in.facetlist[idx].numberofpolygons = 1;
507       in.facetlist[idx].polygonlist      = new tetgenio::polygon[in.facetlist[idx].numberofpolygons];
508       in.facetlist[idx].numberofholes    = 0;
509       in.facetlist[idx].holelist         = NULL;
510 
511       ierr = DMPlexGetTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points);CHKERRQ(ierr);
512       for (p = 0; p < numPoints*2; p += 2) {
513         const PetscInt point = points[p];
514         if ((point >= vStart) && (point < vEnd)) points[numVertices++] = point;
515       }
516 
517       tetgenio::polygon *poly = in.facetlist[idx].polygonlist;
518       poly->numberofvertices = numVertices;
519       poly->vertexlist       = new int[poly->numberofvertices];
520       for (v = 0; v < numVertices; ++v) {
521         const PetscInt vIdx = points[v] - vStart;
522         poly->vertexlist[v] = vIdx;
523       }
524       if (label) {ierr = DMLabelGetValue(label, f, &in.facetmarkerlist[idx]);CHKERRQ(ierr);}
525       ierr = DMPlexRestoreTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points);CHKERRQ(ierr);
526     }
527   }
528   if (!rank) {
529     char args[32];
530 
531     /* Take away 'Q' for verbose output */
532     ierr = PetscStrcpy(args, "pqezQ");CHKERRQ(ierr);
533     if (mesh->tetgenOpts) {::tetrahedralize(mesh->tetgenOpts, &in, &out);}
534     else                  {::tetrahedralize(args, &in, &out);}
535   }
536   {
537     DMLabel        glabel      = NULL;
538     const PetscInt numCorners  = 4;
539     const PetscInt numCells    = out.numberoftetrahedra;
540     const PetscInt numVertices = out.numberofpoints;
541     const double   *meshCoords = out.pointlist;
542     int            *cells      = out.tetrahedronlist;
543 
544     ierr = DMPlexInvertCells_Internal(dim, numCells, numCorners, cells);CHKERRQ(ierr);
545     ierr = DMPlexCreateFromCellList(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dm);CHKERRQ(ierr);
546     if (label) {ierr = DMCreateLabel(*dm, labelName); ierr = DMGetLabel(*dm, labelName, &glabel);}
547     /* Set labels */
548     for (v = 0; v < numVertices; ++v) {
549       if (out.pointmarkerlist[v]) {
550         if (glabel) {ierr = DMLabelSetValue(glabel, v+numCells, out.pointmarkerlist[v]);CHKERRQ(ierr);}
551       }
552     }
553     if (interpolate) {
554 #if 0
555       PetscInt e;
556 
557       /* This check is never actually executed for ctetgen (which never returns edgemarkers) and seems to be broken for
558        * tetgen */
559       for (e = 0; e < out.numberofedges; e++) {
560         if (out.edgemarkerlist[e]) {
561           const PetscInt  vertices[2] = {out.edgelist[e*2+0]+numCells, out.edgelist[e*2+1]+numCells};
562           const PetscInt *edges;
563           PetscInt        numEdges;
564 
565           ierr = DMPlexGetJoin(*dm, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
566           if (numEdges != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %D", numEdges);
567           if (glabel) {ierr = DMLabelSetValue(glabel, edges[0], out.edgemarkerlist[e]);CHKERRQ(ierr);}
568           ierr = DMPlexRestoreJoin(*dm, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
569         }
570       }
571 #endif
572       for (f = 0; f < out.numberoftrifaces; f++) {
573         if (out.trifacemarkerlist[f]) {
574           const PetscInt  vertices[3] = {out.trifacelist[f*3+0]+numCells, out.trifacelist[f*3+1]+numCells, out.trifacelist[f*3+2]+numCells};
575           const PetscInt *faces;
576           PetscInt        numFaces;
577 
578           ierr = DMPlexGetFullJoin(*dm, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
579           if (numFaces != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %D", numFaces);
580           if (glabel) {ierr = DMLabelSetValue(glabel, faces[0], out.trifacemarkerlist[f]);CHKERRQ(ierr);}
581           ierr = DMPlexRestoreJoin(*dm, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
582         }
583       }
584     }
585     ierr = DMPlexSetRefinementUniform(*dm, PETSC_FALSE);CHKERRQ(ierr);
586   }
587   PetscFunctionReturn(0);
588 }
589 
590 static PetscErrorCode DMPlexRefine_Tetgen(DM dm, double *maxVolumes, DM *dmRefined)
591 {
592   MPI_Comm       comm;
593   const PetscInt dim       = 3;
594   const char    *labelName = "marker";
595   ::tetgenio     in;
596   ::tetgenio     out;
597   DMLabel        label;
598   PetscInt       vStart, vEnd, v, cStart, cEnd, c, depth, depthGlobal;
599   PetscMPIInt    rank;
600   PetscErrorCode ierr;
601 
602   PetscFunctionBegin;
603   ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr);
604   ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr);
605   ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr);
606   ierr = MPIU_Allreduce(&depth, &depthGlobal, 1, MPIU_INT, MPI_MAX, comm);CHKERRQ(ierr);
607   ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr);
608   ierr = DMGetLabel(dm, labelName, &label);CHKERRQ(ierr);
609 
610   in.numberofpoints = vEnd - vStart;
611   if (in.numberofpoints > 0) {
612     PetscSection coordSection;
613     Vec          coordinates;
614     PetscScalar *array;
615 
616     in.pointlist       = new double[in.numberofpoints*dim];
617     in.pointmarkerlist = new int[in.numberofpoints];
618 
619     ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr);
620     ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr);
621     ierr = VecGetArray(coordinates, &array);CHKERRQ(ierr);
622     for (v = vStart; v < vEnd; ++v) {
623       const PetscInt idx = v - vStart;
624       PetscInt       off, d;
625 
626       ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr);
627       for (d = 0; d < dim; ++d) in.pointlist[idx*dim + d] = PetscRealPart(array[off+d]);
628       if (label) {ierr = DMLabelGetValue(label, v, &in.pointmarkerlist[idx]);CHKERRQ(ierr);}
629     }
630     ierr = VecRestoreArray(coordinates, &array);CHKERRQ(ierr);
631   }
632   ierr  = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr);
633 
634   in.numberofcorners       = 4;
635   in.numberoftetrahedra    = cEnd - cStart;
636   in.tetrahedronvolumelist = (double*) maxVolumes;
637   if (in.numberoftetrahedra > 0) {
638     in.tetrahedronlist = new int[in.numberoftetrahedra*in.numberofcorners];
639     for (c = cStart; c < cEnd; ++c) {
640       const PetscInt idx      = c - cStart;
641       PetscInt      *closure = NULL;
642       PetscInt       closureSize;
643 
644       ierr = DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr);
645       if ((closureSize != 5) && (closureSize != 15)) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Mesh has cell which is not a tetrahedron, %D vertices in closure", closureSize);
646       for (v = 0; v < 4; ++v) {
647         in.tetrahedronlist[idx*in.numberofcorners + v] = closure[(v+closureSize-4)*2] - vStart;
648       }
649       ierr = DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr);
650     }
651   }
652   /* TODO: Put in boundary faces with markers */
653   if (!rank) {
654     char args[32];
655 
656     /* Take away 'Q' for verbose output */
657     /*ierr = PetscStrcpy(args, "qezQra");CHKERRQ(ierr); */
658     ierr = PetscStrcpy(args, "qezraVVVV");CHKERRQ(ierr);
659     ::tetrahedralize(args, &in, &out);
660   }
661   in.tetrahedronvolumelist = NULL;
662 
663   {
664     DMLabel        rlabel      = NULL;
665     const PetscInt numCorners  = 4;
666     const PetscInt numCells    = out.numberoftetrahedra;
667     const PetscInt numVertices = out.numberofpoints;
668     const double   *meshCoords = out.pointlist;
669     int            *cells      = out.tetrahedronlist;
670 
671     PetscBool      interpolate = depthGlobal > 1 ? PETSC_TRUE : PETSC_FALSE;
672 
673     ierr = DMPlexInvertCells_Internal(dim, numCells, numCorners, cells);CHKERRQ(ierr);
674     ierr = DMPlexCreateFromCellList(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dmRefined);CHKERRQ(ierr);
675     if (label) {ierr = DMCreateLabel(*dmRefined, labelName); ierr = DMGetLabel(*dmRefined, labelName, &rlabel);}
676     /* Set labels */
677     for (v = 0; v < numVertices; ++v) {
678       if (out.pointmarkerlist[v]) {
679         if (rlabel) {ierr = DMLabelSetValue(rlabel, v+numCells, out.pointmarkerlist[v]);CHKERRQ(ierr);}
680       }
681     }
682     if (interpolate) {
683       PetscInt e, f;
684 
685       for (e = 0; e < out.numberofedges; e++) {
686         if (out.edgemarkerlist[e]) {
687           const PetscInt  vertices[2] = {out.edgelist[e*2+0]+numCells, out.edgelist[e*2+1]+numCells};
688           const PetscInt *edges;
689           PetscInt        numEdges;
690 
691           ierr = DMPlexGetJoin(*dmRefined, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
692           if (numEdges != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %D", numEdges);
693           if (rlabel) {ierr = DMLabelSetValue(rlabel, edges[0], out.edgemarkerlist[e]);CHKERRQ(ierr);}
694           ierr = DMPlexRestoreJoin(*dmRefined, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
695         }
696       }
697       for (f = 0; f < out.numberoftrifaces; f++) {
698         if (out.trifacemarkerlist[f]) {
699           const PetscInt  vertices[3] = {out.trifacelist[f*3+0]+numCells, out.trifacelist[f*3+1]+numCells, out.trifacelist[f*3+2]+numCells};
700           const PetscInt *faces;
701           PetscInt        numFaces;
702 
703           ierr = DMPlexGetJoin(*dmRefined, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
704           if (numFaces != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %D", numFaces);
705           if (rlabel) {ierr = DMLabelSetValue(rlabel, faces[0], out.trifacemarkerlist[f]);CHKERRQ(ierr);}
706           ierr = DMPlexRestoreJoin(*dmRefined, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
707         }
708       }
709     }
710     ierr = DMPlexSetRefinementUniform(*dmRefined, PETSC_FALSE);CHKERRQ(ierr);
711   }
712   PetscFunctionReturn(0);
713 }
714 #endif /* PETSC_HAVE_TETGEN */
715 
716 #if defined(PETSC_HAVE_CTETGEN)
717 #include <ctetgen.h>
718 
719 static PetscErrorCode DMPlexGenerate_CTetgen(DM boundary, PetscBool interpolate, DM *dm)
720 {
721   MPI_Comm       comm;
722   const PetscInt dim       = 3;
723   const char    *labelName = "marker";
724   PLC           *in, *out;
725   DMLabel        label;
726   PetscInt       verbose = 0, vStart, vEnd, v, fStart, fEnd, f;
727   PetscMPIInt    rank;
728   PetscErrorCode ierr;
729 
730   PetscFunctionBegin;
731   ierr = PetscObjectGetComm((PetscObject)boundary,&comm);CHKERRQ(ierr);
732   ierr = PetscOptionsGetInt(NULL,((PetscObject) boundary)->prefix, "-ctetgen_verbose", &verbose, NULL);CHKERRQ(ierr);
733   ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr);
734   ierr = DMPlexGetDepthStratum(boundary, 0, &vStart, &vEnd);CHKERRQ(ierr);
735   ierr = DMGetLabel(boundary, labelName, &label);CHKERRQ(ierr);
736   ierr = PLCCreate(&in);CHKERRQ(ierr);
737   ierr = PLCCreate(&out);CHKERRQ(ierr);
738 
739   in->numberofpoints = vEnd - vStart;
740   if (in->numberofpoints > 0) {
741     PetscSection coordSection;
742     Vec          coordinates;
743     PetscScalar *array;
744 
745     ierr = PetscMalloc1(in->numberofpoints*dim, &in->pointlist);CHKERRQ(ierr);
746     ierr = PetscMalloc1(in->numberofpoints,       &in->pointmarkerlist);CHKERRQ(ierr);
747     ierr = DMGetCoordinatesLocal(boundary, &coordinates);CHKERRQ(ierr);
748     ierr = DMGetCoordinateSection(boundary, &coordSection);CHKERRQ(ierr);
749     ierr = VecGetArray(coordinates, &array);CHKERRQ(ierr);
750     for (v = vStart; v < vEnd; ++v) {
751       const PetscInt idx = v - vStart;
752       PetscInt       off, d, m = -1;
753 
754       ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr);
755       for (d = 0; d < dim; ++d) {
756         in->pointlist[idx*dim + d] = PetscRealPart(array[off+d]);
757       }
758       if (label) {ierr = DMLabelGetValue(label, v, &m);CHKERRQ(ierr);}
759 
760       in->pointmarkerlist[idx] = (int) m;
761     }
762     ierr = VecRestoreArray(coordinates, &array);CHKERRQ(ierr);
763   }
764   ierr  = DMPlexGetHeightStratum(boundary, 0, &fStart, &fEnd);CHKERRQ(ierr);
765 
766   in->numberoffacets = fEnd - fStart;
767   if (in->numberoffacets > 0) {
768     ierr = PetscMalloc1(in->numberoffacets, &in->facetlist);CHKERRQ(ierr);
769     ierr = PetscMalloc1(in->numberoffacets,   &in->facetmarkerlist);CHKERRQ(ierr);
770     for (f = fStart; f < fEnd; ++f) {
771       const PetscInt idx     = f - fStart;
772       PetscInt      *points = NULL, numPoints, p, numVertices = 0, v, m = -1;
773       polygon       *poly;
774 
775       in->facetlist[idx].numberofpolygons = 1;
776 
777       ierr = PetscMalloc1(in->facetlist[idx].numberofpolygons, &in->facetlist[idx].polygonlist);CHKERRQ(ierr);
778 
779       in->facetlist[idx].numberofholes    = 0;
780       in->facetlist[idx].holelist         = NULL;
781 
782       ierr = DMPlexGetTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points);CHKERRQ(ierr);
783       for (p = 0; p < numPoints*2; p += 2) {
784         const PetscInt point = points[p];
785         if ((point >= vStart) && (point < vEnd)) points[numVertices++] = point;
786       }
787 
788       poly                   = in->facetlist[idx].polygonlist;
789       poly->numberofvertices = numVertices;
790       ierr                   = PetscMalloc1(poly->numberofvertices, &poly->vertexlist);CHKERRQ(ierr);
791       for (v = 0; v < numVertices; ++v) {
792         const PetscInt vIdx = points[v] - vStart;
793         poly->vertexlist[v] = vIdx;
794       }
795       if (label) {ierr = DMLabelGetValue(label, f, &m);CHKERRQ(ierr);}
796       in->facetmarkerlist[idx] = (int) m;
797       ierr = DMPlexRestoreTransitiveClosure(boundary, f, PETSC_TRUE, &numPoints, &points);CHKERRQ(ierr);
798     }
799   }
800   if (!rank) {
801     TetGenOpts t;
802 
803     ierr        = TetGenOptsInitialize(&t);CHKERRQ(ierr);
804     t.in        = boundary; /* Should go away */
805     t.plc       = 1;
806     t.quality   = 1;
807     t.edgesout  = 1;
808     t.zeroindex = 1;
809     t.quiet     = 1;
810     t.verbose   = verbose;
811     ierr        = TetGenCheckOpts(&t);CHKERRQ(ierr);
812     ierr        = TetGenTetrahedralize(&t, in, out);CHKERRQ(ierr);
813   }
814   {
815     DMLabel        glabel      = NULL;
816     const PetscInt numCorners  = 4;
817     const PetscInt numCells    = out->numberoftetrahedra;
818     const PetscInt numVertices = out->numberofpoints;
819     double         *meshCoords;
820     int            *cells      = out->tetrahedronlist;
821 
822     if (sizeof (PetscReal) == sizeof (double)) {
823       meshCoords = (double *) out->pointlist;
824     }
825     else {
826       PetscInt i;
827 
828       ierr = PetscMalloc1(3 * numVertices,&meshCoords);CHKERRQ(ierr);
829       for (i = 0; i < 3 * numVertices; i++) {
830         meshCoords[i] = (PetscReal) out->pointlist[i];
831       }
832     }
833 
834     ierr = DMPlexInvertCells_Internal(dim, numCells, numCorners, cells);CHKERRQ(ierr);
835     ierr = DMPlexCreateFromCellList(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dm);CHKERRQ(ierr);
836     if (sizeof (PetscReal) != sizeof (double)) {
837       ierr = PetscFree(meshCoords);CHKERRQ(ierr);
838     }
839     if (label) {ierr = DMCreateLabel(*dm, labelName); ierr = DMGetLabel(*dm, labelName, &glabel);}
840     /* Set labels */
841     for (v = 0; v < numVertices; ++v) {
842       if (out->pointmarkerlist[v]) {
843         if (glabel) {ierr = DMLabelSetValue(glabel, v+numCells, out->pointmarkerlist[v]);CHKERRQ(ierr);}
844       }
845     }
846     if (interpolate) {
847       PetscInt e;
848 
849       for (e = 0; e < out->numberofedges; e++) {
850         if (out->edgemarkerlist[e]) {
851           const PetscInt  vertices[2] = {out->edgelist[e*2+0]+numCells, out->edgelist[e*2+1]+numCells};
852           const PetscInt *edges;
853           PetscInt        numEdges;
854 
855           ierr = DMPlexGetJoin(*dm, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
856           if (numEdges != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %D", numEdges);
857           if (glabel) {ierr = DMLabelSetValue(glabel, edges[0], out->edgemarkerlist[e]);CHKERRQ(ierr);}
858           ierr = DMPlexRestoreJoin(*dm, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
859         }
860       }
861       for (f = 0; f < out->numberoftrifaces; f++) {
862         if (out->trifacemarkerlist[f]) {
863           const PetscInt  vertices[3] = {out->trifacelist[f*3+0]+numCells, out->trifacelist[f*3+1]+numCells, out->trifacelist[f*3+2]+numCells};
864           const PetscInt *faces;
865           PetscInt        numFaces;
866 
867           ierr = DMPlexGetFullJoin(*dm, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
868           if (numFaces != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %D", numFaces);
869           if (glabel) {ierr = DMLabelSetValue(glabel, faces[0], out->trifacemarkerlist[f]);CHKERRQ(ierr);}
870           ierr = DMPlexRestoreJoin(*dm, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
871         }
872       }
873     }
874     ierr = DMPlexSetRefinementUniform(*dm, PETSC_FALSE);CHKERRQ(ierr);
875   }
876 
877   ierr = PLCDestroy(&in);CHKERRQ(ierr);
878   ierr = PLCDestroy(&out);CHKERRQ(ierr);
879   PetscFunctionReturn(0);
880 }
881 
882 static PetscErrorCode DMPlexRefine_CTetgen(DM dm, PetscReal *maxVolumes, DM *dmRefined)
883 {
884   MPI_Comm       comm;
885   const PetscInt dim       = 3;
886   const char    *labelName = "marker";
887   PLC           *in, *out;
888   DMLabel        label;
889   PetscInt       verbose = 0, vStart, vEnd, v, cStart, cEnd, c, depth, depthGlobal;
890   PetscMPIInt    rank;
891   PetscErrorCode ierr;
892 
893   PetscFunctionBegin;
894   ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr);
895   ierr = PetscOptionsGetInt(NULL,((PetscObject) dm)->prefix, "-ctetgen_verbose", &verbose, NULL);CHKERRQ(ierr);
896   ierr = MPI_Comm_rank(comm, &rank);CHKERRQ(ierr);
897   ierr = DMPlexGetDepth(dm, &depth);CHKERRQ(ierr);
898   ierr = MPIU_Allreduce(&depth, &depthGlobal, 1, MPIU_INT, MPI_MAX, comm);CHKERRQ(ierr);
899   ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr);
900   ierr = DMGetLabel(dm, labelName, &label);CHKERRQ(ierr);
901   ierr = PLCCreate(&in);CHKERRQ(ierr);
902   ierr = PLCCreate(&out);CHKERRQ(ierr);
903 
904   in->numberofpoints = vEnd - vStart;
905   if (in->numberofpoints > 0) {
906     PetscSection coordSection;
907     Vec          coordinates;
908     PetscScalar *array;
909 
910     ierr = PetscMalloc1(in->numberofpoints*dim, &in->pointlist);CHKERRQ(ierr);
911     ierr = PetscMalloc1(in->numberofpoints,       &in->pointmarkerlist);CHKERRQ(ierr);
912     ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr);
913     ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr);
914     ierr = VecGetArray(coordinates, &array);CHKERRQ(ierr);
915     for (v = vStart; v < vEnd; ++v) {
916       const PetscInt idx = v - vStart;
917       PetscInt       off, d, m = -1;
918 
919       ierr = PetscSectionGetOffset(coordSection, v, &off);CHKERRQ(ierr);
920       for (d = 0; d < dim; ++d) {
921         in->pointlist[idx*dim + d] = PetscRealPart(array[off+d]);
922       }
923       if (label) {ierr = DMLabelGetValue(label, v, &m);CHKERRQ(ierr);}
924 
925       in->pointmarkerlist[idx] = (int) m;
926     }
927     ierr = VecRestoreArray(coordinates, &array);CHKERRQ(ierr);
928   }
929   ierr  = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr);
930 
931   in->numberofcorners       = 4;
932   in->numberoftetrahedra    = cEnd - cStart;
933   in->tetrahedronvolumelist = maxVolumes;
934   if (in->numberoftetrahedra > 0) {
935     ierr = PetscMalloc1(in->numberoftetrahedra*in->numberofcorners, &in->tetrahedronlist);CHKERRQ(ierr);
936     for (c = cStart; c < cEnd; ++c) {
937       const PetscInt idx      = c - cStart;
938       PetscInt      *closure = NULL;
939       PetscInt       closureSize;
940 
941       ierr = DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr);
942       if ((closureSize != 5) && (closureSize != 15)) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "Mesh has cell which is not a tetrahedron, %D vertices in closure", closureSize);
943       for (v = 0; v < 4; ++v) {
944         in->tetrahedronlist[idx*in->numberofcorners + v] = closure[(v+closureSize-4)*2] - vStart;
945       }
946       ierr = DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr);
947     }
948   }
949   if (!rank) {
950     TetGenOpts t;
951 
952     ierr = TetGenOptsInitialize(&t);CHKERRQ(ierr);
953 
954     t.in        = dm; /* Should go away */
955     t.refine    = 1;
956     t.varvolume = 1;
957     t.quality   = 1;
958     t.edgesout  = 1;
959     t.zeroindex = 1;
960     t.quiet     = 1;
961     t.verbose   = verbose; /* Change this */
962 
963     ierr = TetGenCheckOpts(&t);CHKERRQ(ierr);
964     ierr = TetGenTetrahedralize(&t, in, out);CHKERRQ(ierr);
965   }
966   {
967     DMLabel        rlabel      = NULL;
968     const PetscInt numCorners  = 4;
969     const PetscInt numCells    = out->numberoftetrahedra;
970     const PetscInt numVertices = out->numberofpoints;
971     double         *meshCoords;
972     int            *cells      = out->tetrahedronlist;
973     PetscBool      interpolate = depthGlobal > 1 ? PETSC_TRUE : PETSC_FALSE;
974 
975     if (sizeof (PetscReal) == sizeof (double)) {
976       meshCoords = (double *) out->pointlist;
977     }
978     else {
979       PetscInt i;
980 
981       ierr = PetscMalloc1(3 * numVertices,&meshCoords);CHKERRQ(ierr);
982       for (i = 0; i < 3 * numVertices; i++) {
983         meshCoords[i] = (PetscReal) out->pointlist[i];
984       }
985     }
986 
987     ierr = DMPlexInvertCells_Internal(dim, numCells, numCorners, cells);CHKERRQ(ierr);
988     ierr = DMPlexCreateFromCellList(comm, dim, numCells, numVertices, numCorners, interpolate, cells, dim, meshCoords, dmRefined);CHKERRQ(ierr);
989     if (sizeof (PetscReal) != sizeof (double)) {
990       ierr = PetscFree(meshCoords);CHKERRQ(ierr);
991     }
992     if (label) {ierr = DMCreateLabel(*dmRefined, labelName); ierr = DMGetLabel(*dmRefined, labelName, &rlabel);}
993     /* Set labels */
994     for (v = 0; v < numVertices; ++v) {
995       if (out->pointmarkerlist[v]) {
996         if (rlabel) {ierr = DMLabelSetValue(rlabel, v+numCells, out->pointmarkerlist[v]);CHKERRQ(ierr);}
997       }
998     }
999     if (interpolate) {
1000       PetscInt e, f;
1001 
1002       for (e = 0; e < out->numberofedges; e++) {
1003         if (out->edgemarkerlist[e]) {
1004           const PetscInt  vertices[2] = {out->edgelist[e*2+0]+numCells, out->edgelist[e*2+1]+numCells};
1005           const PetscInt *edges;
1006           PetscInt        numEdges;
1007 
1008           ierr = DMPlexGetJoin(*dmRefined, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
1009           if (numEdges != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Two vertices must cover only one edge, not %D", numEdges);
1010           if (rlabel) {ierr = DMLabelSetValue(rlabel, edges[0], out->edgemarkerlist[e]);CHKERRQ(ierr);}
1011           ierr = DMPlexRestoreJoin(*dmRefined, 2, vertices, &numEdges, &edges);CHKERRQ(ierr);
1012         }
1013       }
1014       for (f = 0; f < out->numberoftrifaces; f++) {
1015         if (out->trifacemarkerlist[f]) {
1016           const PetscInt  vertices[3] = {out->trifacelist[f*3+0]+numCells, out->trifacelist[f*3+1]+numCells, out->trifacelist[f*3+2]+numCells};
1017           const PetscInt *faces;
1018           PetscInt        numFaces;
1019 
1020           ierr = DMPlexGetFullJoin(*dmRefined, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
1021           if (numFaces != 1) SETERRQ1(PETSC_COMM_SELF, PETSC_ERR_PLIB, "Three vertices must cover only one face, not %D", numFaces);
1022           if (rlabel) {ierr = DMLabelSetValue(rlabel, faces[0], out->trifacemarkerlist[f]);CHKERRQ(ierr);}
1023           ierr = DMPlexRestoreJoin(*dmRefined, 3, vertices, &numFaces, &faces);CHKERRQ(ierr);
1024         }
1025       }
1026     }
1027     ierr = DMPlexSetRefinementUniform(*dmRefined, PETSC_FALSE);CHKERRQ(ierr);
1028   }
1029   ierr = PLCDestroy(&in);CHKERRQ(ierr);
1030   ierr = PLCDestroy(&out);CHKERRQ(ierr);
1031   PetscFunctionReturn(0);
1032 }
1033 #endif /* PETSC_HAVE_CTETGEN */
1034 
1035 /*@C
1036   DMPlexGenerate - Generates a mesh.
1037 
1038   Not Collective
1039 
1040   Input Parameters:
1041 + boundary - The DMPlex boundary object
1042 . name - The mesh generation package name
1043 - interpolate - Flag to create intermediate mesh elements
1044 
1045   Output Parameter:
1046 . mesh - The DMPlex object
1047 
1048   Level: intermediate
1049 
1050 .keywords: mesh, elements
1051 .seealso: DMPlexCreate(), DMRefine()
1052 @*/
1053 PetscErrorCode DMPlexGenerate(DM boundary, const char name[], PetscBool interpolate, DM *mesh)
1054 {
1055   PetscInt       dim;
1056   char           genname[1024];
1057   PetscBool      isTriangle = PETSC_FALSE, isTetgen = PETSC_FALSE, isCTetgen = PETSC_FALSE, flg;
1058   PetscErrorCode ierr;
1059 
1060   PetscFunctionBegin;
1061   PetscValidHeaderSpecific(boundary, DM_CLASSID, 1);
1062   PetscValidLogicalCollectiveBool(boundary, interpolate, 2);
1063   ierr = DMGetDimension(boundary, &dim);CHKERRQ(ierr);
1064   ierr = PetscOptionsGetString(((PetscObject) boundary)->options,((PetscObject) boundary)->prefix, "-dm_plex_generator", genname, 1024, &flg);CHKERRQ(ierr);
1065   if (flg) name = genname;
1066   if (name) {
1067     ierr = PetscStrcmp(name, "triangle", &isTriangle);CHKERRQ(ierr);
1068     ierr = PetscStrcmp(name, "tetgen",   &isTetgen);CHKERRQ(ierr);
1069     ierr = PetscStrcmp(name, "ctetgen",  &isCTetgen);CHKERRQ(ierr);
1070   }
1071   switch (dim) {
1072   case 1:
1073     if (!name || isTriangle) {
1074 #if defined(PETSC_HAVE_TRIANGLE)
1075       ierr = DMPlexGenerate_Triangle(boundary, interpolate, mesh);CHKERRQ(ierr);
1076 #else
1077       SETERRQ(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "Mesh generation needs external package support.\nPlease reconfigure with --download-triangle.");
1078 #endif
1079     } else SETERRQ1(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "Unknown 2D mesh generation package %s", name);
1080     break;
1081   case 2:
1082     if (!name) {
1083 #if defined(PETSC_HAVE_CTETGEN)
1084       ierr = DMPlexGenerate_CTetgen(boundary, interpolate, mesh);CHKERRQ(ierr);
1085 #elif defined(PETSC_HAVE_TETGEN)
1086       ierr = DMPlexGenerate_Tetgen(boundary, interpolate, mesh);CHKERRQ(ierr);
1087 #else
1088       SETERRQ(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "External package CTetgen or Tetgen needed.\nPlease reconfigure with --download-ctetgen or --download-tetgen.");
1089 #endif
1090     } else if (isCTetgen) {
1091 #if defined(PETSC_HAVE_CTETGEN)
1092       ierr = DMPlexGenerate_CTetgen(boundary, interpolate, mesh);CHKERRQ(ierr);
1093 #else
1094       SETERRQ(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "CTetgen needs external package support.\nPlease reconfigure with --download-ctetgen.");
1095 #endif
1096     } else if (isTetgen) {
1097 #if defined(PETSC_HAVE_TETGEN)
1098       ierr = DMPlexGenerate_Tetgen(boundary, interpolate, mesh);CHKERRQ(ierr);
1099 #else
1100       SETERRQ(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "Tetgen needs external package support.\nPlease reconfigure with --download-tetgen.");
1101 #endif
1102     } else SETERRQ1(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "Unknown 3D mesh generation package %s", name);
1103     break;
1104   default:
1105     SETERRQ1(PetscObjectComm((PetscObject)boundary), PETSC_ERR_SUP, "Mesh generation for a dimension %d boundary is not supported.", dim);
1106   }
1107   PetscFunctionReturn(0);
1108 }
1109 
1110 #if defined(PETSC_HAVE_TRIANGLE) || defined(PETSC_HAVE_CTETGEN) || defined(PETSC_HAVE_TETGEN)
1111 static PetscErrorCode DMRefine_Plex_Label(DM dm, DMLabel adaptLabel, PetscInt cStart, PetscInt cEnd, PetscReal maxVolumes[])
1112 {
1113   PetscInt       dim, c;
1114   PetscReal      refRatio;
1115   PetscErrorCode ierr;
1116 
1117   PetscFunctionBegin;
1118   ierr     = DMGetDimension(dm,&dim);CHKERRQ(ierr);
1119   refRatio = (PetscReal) ((PetscInt) 1 << dim);
1120   for (c = cStart; c < cEnd; c++) {
1121     PetscReal vol;
1122     PetscInt  i, closureSize = 0;
1123     PetscInt  *closure = NULL;
1124     PetscBool anyRefine  = PETSC_FALSE;
1125     PetscBool anyCoarsen = PETSC_FALSE;
1126     PetscBool anyKeep    = PETSC_FALSE;
1127 
1128     ierr = DMPlexComputeCellGeometryFVM(dm,c,&vol,NULL,NULL);CHKERRQ(ierr);
1129     maxVolumes[c - cStart] = vol;
1130     ierr = DMPlexGetTransitiveClosure(dm,c,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr);
1131     for (i = 0; i < closureSize; i++) {
1132       PetscInt point = closure[2 * i], refFlag;
1133 
1134       ierr = DMLabelGetValue(adaptLabel,point,&refFlag);CHKERRQ(ierr);
1135       switch (refFlag) {
1136       case DM_ADAPT_REFINE:
1137         anyRefine = PETSC_TRUE;
1138         break;
1139       case DM_ADAPT_COARSEN:
1140         anyCoarsen = PETSC_TRUE;
1141         break;
1142       case DM_ADAPT_KEEP:
1143         anyKeep = PETSC_TRUE;
1144         break;
1145       case DM_ADAPT_DETERMINE:
1146         break;
1147       default:
1148         SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"DMPlex does not support refinement flag %D\n",refFlag);
1149         break;
1150       }
1151       if (anyRefine) break;
1152     }
1153     ierr = DMPlexRestoreTransitiveClosure(dm,c,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr);
1154     if (anyRefine) {
1155       maxVolumes[c - cStart] = vol / refRatio;
1156     } else if (anyKeep) {
1157       maxVolumes[c - cStart] = vol;
1158     } else if (anyCoarsen) {
1159       maxVolumes[c - cStart] = vol * refRatio;
1160     }
1161   }
1162   PetscFunctionReturn(0);
1163 }
1164 #endif
1165 
1166 static PetscErrorCode DMRefine_Plex_Internal(DM dm, MPI_Comm comm, DMLabel adaptLabel, DM *dmRefined)
1167 {
1168   PetscErrorCode (*refinementFunc)(const PetscReal [], PetscReal *);
1169   PetscReal        refinementLimit;
1170   PetscInt         dim, cStart, cEnd;
1171   char             genname[1024], *name = NULL;
1172   PetscBool        isUniform, isTriangle = PETSC_FALSE, isTetgen = PETSC_FALSE, isCTetgen = PETSC_FALSE, flg, localized;
1173   PetscErrorCode   ierr;
1174 
1175   PetscFunctionBegin;
1176   ierr = DMGetCoordinatesLocalized(dm, &localized);CHKERRQ(ierr);
1177   ierr = DMPlexGetRefinementUniform(dm, &isUniform);CHKERRQ(ierr);
1178   if (isUniform) {
1179     CellRefiner cellRefiner;
1180 
1181     ierr = DMPlexGetCellRefiner_Internal(dm, &cellRefiner);CHKERRQ(ierr);
1182     ierr = DMPlexRefineUniform_Internal(dm, cellRefiner, dmRefined);CHKERRQ(ierr);
1183     ierr = DMCopyBoundary(dm, *dmRefined);CHKERRQ(ierr);
1184     if (localized) {
1185       ierr = DMLocalizeCoordinates(*dmRefined);CHKERRQ(ierr);
1186     }
1187     PetscFunctionReturn(0);
1188   }
1189   ierr = DMPlexGetRefinementLimit(dm, &refinementLimit);CHKERRQ(ierr);
1190   ierr = DMPlexGetRefinementFunction(dm, &refinementFunc);CHKERRQ(ierr);
1191   if (refinementLimit == 0.0 && !refinementFunc) PetscFunctionReturn(0);
1192   ierr = DMGetDimension(dm, &dim);CHKERRQ(ierr);
1193   ierr = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr);
1194   ierr = PetscOptionsGetString(((PetscObject) dm)->options,((PetscObject) dm)->prefix, "-dm_plex_generator", genname, 1024, &flg);CHKERRQ(ierr);
1195   if (flg) name = genname;
1196   if (name) {
1197     ierr = PetscStrcmp(name, "triangle", &isTriangle);CHKERRQ(ierr);
1198     ierr = PetscStrcmp(name, "tetgen",   &isTetgen);CHKERRQ(ierr);
1199     ierr = PetscStrcmp(name, "ctetgen",  &isCTetgen);CHKERRQ(ierr);
1200   }
1201   switch (dim) {
1202   case 2:
1203     if (!name || isTriangle) {
1204 #if defined(PETSC_HAVE_TRIANGLE)
1205       PetscReal *maxVolumes;
1206       PetscInt  c;
1207 
1208       ierr = PetscMalloc1(cEnd - cStart, &maxVolumes);CHKERRQ(ierr);
1209       if (adaptLabel) {
1210         ierr = DMRefine_Plex_Label(dm,adaptLabel,cStart,cEnd,maxVolumes);CHKERRQ(ierr);
1211       } else if (refinementFunc) {
1212         for (c = cStart; c < cEnd; ++c) {
1213           PetscReal vol, centroid[3];
1214           PetscReal maxVol;
1215 
1216           ierr = DMPlexComputeCellGeometryFVM(dm, c, &vol, centroid, NULL);CHKERRQ(ierr);
1217           ierr = (*refinementFunc)(centroid, &maxVol);CHKERRQ(ierr);
1218           maxVolumes[c - cStart] = (double) maxVol;
1219         }
1220       } else {
1221         for (c = 0; c < cEnd-cStart; ++c) maxVolumes[c] = refinementLimit;
1222       }
1223 #if !defined(PETSC_USE_REAL_DOUBLE)
1224       {
1225         double *mvols;
1226         ierr = PetscMalloc1(cEnd - cStart,&mvols);CHKERRQ(ierr);
1227         for (c = 0; c < cEnd-cStart; ++c) mvols[c] = (double)maxVolumes[c];
1228         ierr = DMPlexRefine_Triangle(dm, mvols, dmRefined);CHKERRQ(ierr);
1229         ierr = PetscFree(mvols);CHKERRQ(ierr);
1230       }
1231 #else
1232       ierr = DMPlexRefine_Triangle(dm, maxVolumes, dmRefined);CHKERRQ(ierr);
1233 #endif
1234       ierr = PetscFree(maxVolumes);CHKERRQ(ierr);
1235 #else
1236       SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_SUP, "Mesh refinement needs external package support.\nPlease reconfigure with --download-triangle.");
1237 #endif
1238     } else SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_SUP, "Unknown 2D mesh generation package %s", name);
1239     break;
1240   case 3:
1241     if (!name || isCTetgen) {
1242 #if defined(PETSC_HAVE_CTETGEN)
1243       PetscReal *maxVolumes;
1244       PetscInt   c;
1245 
1246       ierr = PetscMalloc1(cEnd - cStart, &maxVolumes);CHKERRQ(ierr);
1247       if (adaptLabel) {
1248         ierr = DMRefine_Plex_Label(dm,adaptLabel,cStart,cEnd,maxVolumes);CHKERRQ(ierr);
1249       } else if (refinementFunc) {
1250         for (c = cStart; c < cEnd; ++c) {
1251           PetscReal vol, centroid[3];
1252 
1253           ierr = DMPlexComputeCellGeometryFVM(dm, c, &vol, centroid, NULL);CHKERRQ(ierr);
1254           ierr = (*refinementFunc)(centroid, &maxVolumes[c-cStart]);CHKERRQ(ierr);
1255         }
1256       } else {
1257         for (c = 0; c < cEnd-cStart; ++c) maxVolumes[c] = refinementLimit;
1258       }
1259       ierr = DMPlexRefine_CTetgen(dm, maxVolumes, dmRefined);CHKERRQ(ierr);
1260 #else
1261       SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_SUP, "CTetgen needs external package support.\nPlease reconfigure with --download-ctetgen.");
1262 #endif
1263     } else if (isTetgen) {
1264 #if defined(PETSC_HAVE_TETGEN)
1265       double  *maxVolumes;
1266       PetscInt c;
1267 
1268       ierr = PetscMalloc1(cEnd - cStart, &maxVolumes);CHKERRQ(ierr);
1269       if (adaptLabel) {
1270         ierr = DMRefine_Plex_Label(dm,adaptLabel,cStart,cEnd,maxVolumes);CHKERRQ(ierr);
1271       } else if (refinementFunc) {
1272         for (c = cStart; c < cEnd; ++c) {
1273           PetscReal vol, centroid[3];
1274 
1275           ierr = DMPlexComputeCellGeometryFVM(dm, c, &vol, centroid, NULL);CHKERRQ(ierr);
1276           ierr = (*refinementFunc)(centroid, &maxVolumes[c-cStart]);CHKERRQ(ierr);
1277         }
1278       } else {
1279         for (c = 0; c < cEnd-cStart; ++c) maxVolumes[c] = refinementLimit;
1280       }
1281       ierr = DMPlexRefine_Tetgen(dm, maxVolumes, dmRefined);CHKERRQ(ierr);
1282 #else
1283       SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_SUP, "Tetgen needs external package support.\nPlease reconfigure with --with-c-language=cxx --download-tetgen.");
1284 #endif
1285     } else SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_SUP, "Unknown 3D mesh generation package %s", name);
1286     break;
1287   default:
1288     SETERRQ1(PetscObjectComm((PetscObject)dm), PETSC_ERR_SUP, "Mesh refinement in dimension %d is not supported.", dim);
1289   }
1290   ierr = DMCopyBoundary(dm, *dmRefined);CHKERRQ(ierr);
1291   if (localized) {
1292     ierr = DMLocalizeCoordinates(*dmRefined);CHKERRQ(ierr);
1293   }
1294   PetscFunctionReturn(0);
1295 }
1296 
1297 PetscErrorCode DMRefine_Plex(DM dm, MPI_Comm comm, DM *dmRefined)
1298 {
1299   PetscErrorCode ierr;
1300 
1301   PetscFunctionBegin;
1302   ierr = DMRefine_Plex_Internal(dm,comm,NULL,dmRefined);CHKERRQ(ierr);
1303   PetscFunctionReturn(0);
1304 }
1305 
1306 PetscErrorCode DMAdaptLabel_Plex(DM dm, DMLabel adaptLabel, DM *dmAdapted)
1307 {
1308   PetscInt       defFlag, minFlag, maxFlag, numFlags, i;
1309   const PetscInt *flags;
1310   IS             flagIS;
1311   PetscErrorCode ierr;
1312 
1313   PetscFunctionBegin;
1314   ierr = DMLabelGetDefaultValue(adaptLabel,&defFlag);CHKERRQ(ierr);
1315   minFlag = defFlag;
1316   maxFlag = defFlag;
1317   ierr = DMLabelGetValueIS(adaptLabel,&flagIS);CHKERRQ(ierr);
1318   ierr = ISGetLocalSize(flagIS,&numFlags);CHKERRQ(ierr);
1319   ierr = ISGetIndices(flagIS,&flags);CHKERRQ(ierr);
1320   for (i = 0; i < numFlags; i++) {
1321     PetscInt flag = flags[i];
1322 
1323     minFlag = PetscMin(minFlag,flag);
1324     maxFlag = PetscMax(maxFlag,flag);
1325   }
1326   ierr = ISRestoreIndices(flagIS,&flags);CHKERRQ(ierr);
1327   ierr = ISDestroy(&flagIS);CHKERRQ(ierr);
1328   {
1329     PetscInt minMaxFlag[2], minMaxFlagGlobal[2];
1330 
1331     minMaxFlag[0] = minFlag;
1332     minMaxFlag[1] = -maxFlag;
1333     ierr = MPI_Allreduce(minMaxFlag,minMaxFlagGlobal,2,MPIU_INT,MPI_MIN,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr);
1334     minFlag = minMaxFlagGlobal[0];
1335     maxFlag = -minMaxFlagGlobal[1];
1336   }
1337   if (minFlag == maxFlag) {
1338     switch (minFlag) {
1339     case DM_ADAPT_DETERMINE:
1340       *dmAdapted = NULL;
1341       break;
1342     case DM_ADAPT_REFINE:
1343       ierr = DMPlexSetRefinementUniform(dm,PETSC_TRUE);CHKERRQ(ierr);
1344       ierr = DMRefine(dm,MPI_COMM_NULL,dmAdapted);CHKERRQ(ierr);
1345       break;
1346     case DM_ADAPT_COARSEN:
1347       ierr = DMCoarsen(dm,MPI_COMM_NULL,dmAdapted);CHKERRQ(ierr);
1348       break;
1349     default:
1350       SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"DMPlex does not support refinement flag %D\n",minFlag);
1351       break;
1352     }
1353   } else {
1354     ierr = DMPlexSetRefinementUniform(dm,PETSC_FALSE);CHKERRQ(ierr);
1355     ierr = DMRefine_Plex_Internal(dm,MPI_COMM_NULL,adaptLabel,dmAdapted);CHKERRQ(ierr);
1356   }
1357   PetscFunctionReturn(0);
1358 }
1359 
1360 PetscErrorCode DMRefineHierarchy_Plex(DM dm, PetscInt nlevels, DM dmRefined[])
1361 {
1362   DM             cdm = dm;
1363   PetscInt       r;
1364   PetscBool      isUniform, localized;
1365   PetscErrorCode ierr;
1366 
1367   PetscFunctionBegin;
1368   ierr = DMPlexGetRefinementUniform(dm, &isUniform);CHKERRQ(ierr);
1369   ierr = DMGetCoordinatesLocalized(dm, &localized);CHKERRQ(ierr);
1370   if (!isUniform) SETERRQ(PETSC_COMM_SELF, PETSC_ERR_ARG_WRONG, "Non-uniform refinement is incompatible with the hierarchy");
1371   for (r = 0; r < nlevels; ++r) {
1372     CellRefiner cellRefiner;
1373 
1374     ierr = DMPlexGetCellRefiner_Internal(cdm, &cellRefiner);CHKERRQ(ierr);
1375     ierr = DMPlexRefineUniform_Internal(cdm, cellRefiner, &dmRefined[r]);CHKERRQ(ierr);
1376     ierr = DMCopyBoundary(cdm, dmRefined[r]);CHKERRQ(ierr);
1377     if (localized) {
1378       ierr = DMLocalizeCoordinates(dmRefined[r]);CHKERRQ(ierr);
1379     }
1380     ierr = DMSetCoarseDM(dmRefined[r], cdm);CHKERRQ(ierr);
1381     ierr = DMPlexSetRegularRefinement(dmRefined[r], PETSC_TRUE);CHKERRQ(ierr);
1382     cdm  = dmRefined[r];
1383   }
1384   PetscFunctionReturn(0);
1385 }
1386