xref: /petsc/include/petscdmplex.h (revision 348a1646b1a7771dc468a628d08efb39f735eb8e) 
1 /*
2   DMPlex, for parallel unstructured distributed mesh problems.
3 */
4 #if !defined(PETSCDMPLEX_H)
5 #define PETSCDMPLEX_H
6 
7 #include <petscsection.h>
8 #include <petscdm.h>
9 #include <petscdmplextypes.h>
10 #include <petscdt.h>
11 #include <petscfe.h>
12 #include <petscfv.h>
13 #include <petscsftypes.h>
14 #include <petscdmfield.h>
15 
16 PETSC_EXTERN PetscClassId PETSCPARTITIONER_CLASSID;
17 
18 /*J
19   PetscPartitionerType - String with the name of a PETSc graph partitioner
20 
21   Level: beginner
22 
23 .seealso: PetscPartitionerSetType(), PetscPartitioner
24 J*/
25 typedef const char *PetscPartitionerType;
26 #define PETSCPARTITIONERCHACO    "chaco"
27 #define PETSCPARTITIONERPARMETIS "parmetis"
28 #define PETSCPARTITIONERPTSCOTCH "ptscotch"
29 #define PETSCPARTITIONERSHELL    "shell"
30 #define PETSCPARTITIONERSIMPLE   "simple"
31 #define PETSCPARTITIONERGATHER   "gather"
32 #define PETSCPARTITIONERMATPARTITIONING "matpartitioning"
33 
34 PETSC_EXTERN PetscFunctionList PetscPartitionerList;
35 PETSC_EXTERN PetscErrorCode PetscPartitionerCreate(MPI_Comm, PetscPartitioner *);
36 PETSC_EXTERN PetscErrorCode PetscPartitionerDestroy(PetscPartitioner *);
37 PETSC_EXTERN PetscErrorCode PetscPartitionerSetType(PetscPartitioner, PetscPartitionerType);
38 PETSC_EXTERN PetscErrorCode PetscPartitionerGetType(PetscPartitioner, PetscPartitionerType *);
39 PETSC_EXTERN PetscErrorCode PetscPartitionerSetUp(PetscPartitioner);
40 PETSC_EXTERN PetscErrorCode PetscPartitionerSetFromOptions(PetscPartitioner);
41 PETSC_EXTERN PetscErrorCode PetscPartitionerViewFromOptions(PetscPartitioner,PetscObject,const char[]);
42 PETSC_EXTERN PetscErrorCode PetscPartitionerView(PetscPartitioner, PetscViewer);
43 PETSC_EXTERN PetscErrorCode PetscPartitionerRegister(const char [], PetscErrorCode (*)(PetscPartitioner));
44 PETSC_EXTERN PetscErrorCode PetscPartitionerRegisterDestroy(void);
45 PETSC_EXTERN PetscErrorCode PetscPartitionerPartition(PetscPartitioner, PetscInt, PetscInt, PetscInt[], PetscInt[], PetscSection, PetscSection, PetscSection, IS*);
46 
47 PETSC_EXTERN PetscErrorCode PetscPartitionerDMPlexPartition(PetscPartitioner, DM, PetscSection, PetscSection, IS *);
48 
49 PETSC_EXTERN PetscErrorCode PetscPartitionerShellSetPartition(PetscPartitioner, PetscInt, const PetscInt[], const PetscInt[]);
50 PETSC_EXTERN PetscErrorCode PetscPartitionerShellSetRandom(PetscPartitioner, PetscBool);
51 PETSC_EXTERN PetscErrorCode PetscPartitionerShellGetRandom(PetscPartitioner, PetscBool *);
52 
53 PETSC_EXTERN PetscErrorCode PetscPartitionerMatPartitioningGetMatPartitioning(PetscPartitioner part, MatPartitioning *mp);
54 
55 PETSC_EXTERN PetscErrorCode DMPlexCreate(MPI_Comm, DM*);
56 PETSC_EXTERN PetscErrorCode DMPlexCreateCohesiveSubmesh(DM, PetscBool, const char [], PetscInt, DM *);
57 PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellList(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const double[], DM*);
58 PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellListParallel(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const PetscReal[], PetscSF *, DM *);
59 PETSC_EXTERN PetscErrorCode DMPlexCreateFromDAG(DM, PetscInt, const PetscInt [], const PetscInt [], const PetscInt [], const PetscInt [], const PetscScalar []);
60 PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceCell(MPI_Comm, PetscInt, PetscBool, DM*);
61 PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceCellByType(MPI_Comm, DMPolytopeType, DM *);
62 PETSC_EXTERN PetscErrorCode DMPlexSetOptionsPrefix(DM, const char []);
63 PETSC_EXTERN PetscErrorCode DMPlexGetChart(DM, PetscInt *, PetscInt *);
64 PETSC_EXTERN PetscErrorCode DMPlexSetChart(DM, PetscInt, PetscInt);
65 PETSC_EXTERN PetscErrorCode DMPlexGetConeSize(DM, PetscInt, PetscInt *);
66 PETSC_EXTERN PetscErrorCode DMPlexSetConeSize(DM, PetscInt, PetscInt);
67 PETSC_EXTERN PetscErrorCode DMPlexAddConeSize(DM, PetscInt, PetscInt);
68 PETSC_EXTERN PetscErrorCode DMPlexGetCone(DM, PetscInt, const PetscInt *[]);
69 PETSC_EXTERN PetscErrorCode DMPlexGetConeTuple(DM, IS, PetscSection *, IS *);
70 PETSC_EXTERN PetscErrorCode DMPlexGetConeRecursive(DM, IS, PetscInt *, IS *[], PetscSection *[]);
71 PETSC_EXTERN PetscErrorCode DMPlexRestoreConeRecursive(DM, IS, PetscInt *, IS *[], PetscSection *[]);
72 PETSC_EXTERN PetscErrorCode DMPlexGetConeRecursiveVertices(DM, IS, IS *);
73 PETSC_EXTERN PetscErrorCode DMPlexSetCone(DM, PetscInt, const PetscInt[]);
74 PETSC_EXTERN PetscErrorCode DMPlexInsertCone(DM, PetscInt, PetscInt, PetscInt);
75 PETSC_EXTERN PetscErrorCode DMPlexInsertConeOrientation(DM, PetscInt, PetscInt, PetscInt);
76 PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientation(DM, PetscInt, const PetscInt *[]);
77 PETSC_EXTERN PetscErrorCode DMPlexSetConeOrientation(DM, PetscInt, const PetscInt[]);
78 PETSC_EXTERN PetscErrorCode DMPlexGetSupportSize(DM, PetscInt, PetscInt *);
79 PETSC_EXTERN PetscErrorCode DMPlexSetSupportSize(DM, PetscInt, PetscInt);
80 PETSC_EXTERN PetscErrorCode DMPlexGetSupport(DM, PetscInt, const PetscInt *[]);
81 PETSC_EXTERN PetscErrorCode DMPlexSetSupport(DM, PetscInt, const PetscInt[]);
82 PETSC_EXTERN PetscErrorCode DMPlexInsertSupport(DM, PetscInt, PetscInt, PetscInt);
83 PETSC_EXTERN PetscErrorCode DMPlexGetConeSection(DM, PetscSection *);
84 PETSC_EXTERN PetscErrorCode DMPlexGetSupportSection(DM, PetscSection *);
85 PETSC_EXTERN PetscErrorCode DMPlexGetCones(DM, PetscInt *[]);
86 PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientations(DM, PetscInt *[]);
87 PETSC_EXTERN PetscErrorCode DMPlexGetMaxSizes(DM, PetscInt *, PetscInt *);
88 PETSC_EXTERN PetscErrorCode DMPlexSymmetrize(DM);
89 PETSC_EXTERN PetscErrorCode DMPlexStratify(DM);
90 PETSC_EXTERN PetscErrorCode DMPlexEqual(DM,DM,PetscBool*);
91 PETSC_EXTERN PetscErrorCode DMPlexReverseCell(DM, PetscInt);
92 PETSC_EXTERN PetscErrorCode DMPlexOrientCell(DM,PetscInt,PetscInt,const PetscInt[]);
93 PETSC_EXTERN PetscErrorCode DMPlexCompareOrientations(DM, PetscInt, PetscInt, const PetscInt [], PetscInt *, PetscBool *);
94 PETSC_EXTERN PetscErrorCode DMPlexOrient(DM);
95 PETSC_EXTERN PetscErrorCode DMPlexPreallocateOperator(DM, PetscInt, PetscInt[], PetscInt[], PetscInt[], PetscInt[], Mat, PetscBool);
96 PETSC_EXTERN PetscErrorCode DMPlexGetPointLocal(DM,PetscInt,PetscInt*,PetscInt*);
97 PETSC_EXTERN PetscErrorCode DMPlexPointLocalRead(DM,PetscInt,const PetscScalar*,void*);
98 PETSC_EXTERN PetscErrorCode DMPlexPointLocalRef(DM,PetscInt,PetscScalar*,void*);
99 PETSC_EXTERN PetscErrorCode DMPlexGetPointLocalField(DM,PetscInt,PetscInt,PetscInt*,PetscInt*);
100 PETSC_EXTERN PetscErrorCode DMPlexPointLocalFieldRef(DM,PetscInt,PetscInt,PetscScalar*,void*);
101 PETSC_EXTERN PetscErrorCode DMPlexPointLocalFieldRead(DM,PetscInt,PetscInt,const PetscScalar*,void*);
102 PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobal(DM,PetscInt,PetscInt*,PetscInt*);
103 PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRead(DM,PetscInt,const PetscScalar*,const void*);
104 PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRef(DM,PetscInt,PetscScalar*,void*);
105 PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobalField(DM,PetscInt,PetscInt,PetscInt*,PetscInt*);
106 PETSC_EXTERN PetscErrorCode DMPlexPointGlobalFieldRef(DM,PetscInt,PetscInt,PetscScalar*,void*);
107 PETSC_EXTERN PetscErrorCode DMPlexPointGlobalFieldRead(DM,PetscInt,PetscInt,const PetscScalar*, void*);
108 
109 /* Topological interpolation */
110 PETSC_EXTERN const char * const DMPlexInterpolatedFlags[];
111 /*E
112    DMPlexInterpolatedFlag - Describes level of topological interpolatedness.
113      It is a local or collective property depending on whether it is returned by DMPlexIsInterpolated() or DMPlexIsInterpolatedCollective().
114 
115 $  DMPLEX_INTERPOLATED_INVALID - Uninitialized value (internal use only; never returned by DMPlexIsInterpolated() or DMPlexIsInterpolatedCollective())
116 $  DMPLEX_INTERPOLATED_NONE    - Mesh is not interpolated
117 $  DMPLEX_INTERPOLATED_PARTIAL - Mesh is partially interpolated. This can e.g. mean DMPlex with cells, faces and vertices but no edges represented, or a mesh with mixed cones (see DMPlexStratify() for an example)
118 $  DMPLEX_INTERPOLATED_MIXED   - Can be returned only by DMPlexIsInterpolatedCollective(), meaning that DMPlexIsInterpolated() returns different interpolatedness on different ranks
119 $  DMPLEX_INTERPOLATED_FULL    - Mesh is fully interpolated
120 
121    Level: intermediate
122 
123    Developer Note:
124    Any additions/changes here MUST also be made in include/petsc/finclude/petscdmplex.h and src/dm/f90-mod/petscdmplex.h
125 
126 .seealso: DMPlexIsInterpolated(), DMPlexIsInterpolatedCollective(), DMPlexInterpolate(), DMPlexUninterpolate()
127 E*/
128 typedef enum {
129   DMPLEX_INTERPOLATED_INVALID = -1,
130   DMPLEX_INTERPOLATED_NONE = 0,
131   DMPLEX_INTERPOLATED_PARTIAL,
132   DMPLEX_INTERPOLATED_MIXED,
133   DMPLEX_INTERPOLATED_FULL
134 } DMPlexInterpolatedFlag;
135 PETSC_EXTERN PetscErrorCode DMPlexInterpolate(DM, DM *);
136 PETSC_EXTERN PetscErrorCode DMPlexUninterpolate(DM, DM *);
137 PETSC_EXTERN PetscErrorCode DMPlexInterpolatePointSF(DM, PetscSF);
138 PETSC_EXTERN PetscErrorCode DMPlexIsInterpolated(DM, DMPlexInterpolatedFlag *);
139 PETSC_EXTERN PetscErrorCode DMPlexIsInterpolatedCollective(DM, DMPlexInterpolatedFlag *);
140 
141 PETSC_EXTERN PetscErrorCode DMPlexFilter(DM, DMLabel, PetscInt, DM *);
142 PETSC_EXTERN PetscErrorCode DMPlexGetCellNumbering(DM, IS *);
143 PETSC_EXTERN PetscErrorCode DMPlexGetVertexNumbering(DM, IS *);
144 PETSC_EXTERN PetscErrorCode DMPlexCreatePointNumbering(DM, IS *);
145 PETSC_EXTERN PetscErrorCode DMPlexCreateRankField(DM, Vec *);
146 PETSC_EXTERN PetscErrorCode DMPlexCreateLabelField(DM, DMLabel, Vec *);
147 
148 PETSC_EXTERN PetscErrorCode DMPlexGetDepth(DM, PetscInt *);
149 PETSC_EXTERN PetscErrorCode DMPlexGetDepthLabel(DM, DMLabel *);
150 PETSC_EXTERN PetscErrorCode DMPlexGetDepthStratum(DM, PetscInt, PetscInt *, PetscInt *);
151 PETSC_EXTERN PetscErrorCode DMPlexGetHeightStratum(DM, PetscInt, PetscInt *, PetscInt *);
152 PETSC_EXTERN PetscErrorCode DMPlexGetPointDepth(DM, PetscInt, PetscInt *);
153 PETSC_EXTERN PetscErrorCode DMPlexGetPointHeight(DM, PetscInt, PetscInt *);
154 PETSC_EXTERN PetscErrorCode DMPlexGetCellTypeLabel(DM, DMLabel *);
155 PETSC_EXTERN PetscErrorCode DMPlexGetCellType(DM, PetscInt, DMPolytopeType *);
156 PETSC_EXTERN PetscErrorCode DMPlexSetCellType(DM, PetscInt, DMPolytopeType);
157 PETSC_EXTERN PetscErrorCode DMPlexComputeCellTypes(DM);
158 PETSC_EXTERN PetscErrorCode DMPlexInvertCell(DMPolytopeType, PetscInt[]);
159 PETSC_EXTERN PetscErrorCode DMPlexReorderCell(DM, PetscInt, PetscInt[]);
160 
161 
162 /* Topological Operations */
163 PETSC_EXTERN PetscErrorCode DMPlexGetMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
164 PETSC_EXTERN PetscErrorCode DMPlexGetFullMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
165 PETSC_EXTERN PetscErrorCode DMPlexRestoreMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
166 PETSC_EXTERN PetscErrorCode DMPlexGetJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
167 PETSC_EXTERN PetscErrorCode DMPlexGetFullJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
168 PETSC_EXTERN PetscErrorCode DMPlexRestoreJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
169 PETSC_EXTERN PetscErrorCode DMPlexGetTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
170 PETSC_EXTERN PetscErrorCode DMPlexRestoreTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
171 
172 /* Mesh Generation */
173 PETSC_EXTERN PetscErrorCode DMPlexGenerate(DM, const char [], PetscBool , DM *);
174 PETSC_EXTERN PetscErrorCode DMPlexGenerateRegister(const char[],PetscErrorCode (*)(DM,PetscBool,DM*),PetscErrorCode (*)(DM,double*,DM*),PetscInt);
175 PETSC_EXTERN PetscErrorCode DMPlexGenerateRegisterAll(void);
176 PETSC_EXTERN PetscErrorCode DMPlexGenerateRegisterDestroy(void);
177 PETSC_EXTERN PetscErrorCode DMPlexCopyCoordinates(DM, DM);
178 PETSC_EXTERN PetscErrorCode DMPlexCreateDoublet(MPI_Comm, PetscInt, PetscBool, PetscBool, PetscBool, PetscReal, DM *);
179 PETSC_EXTERN PetscErrorCode DMPlexCreateSquareBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
180 PETSC_EXTERN PetscErrorCode DMPlexCreateCubeBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
181 PETSC_EXTERN PetscErrorCode DMPlexCreateBoxMesh(MPI_Comm, PetscInt, PetscBool, const PetscInt[], const PetscReal[], const PetscReal[], const DMBoundaryType[], PetscBool, DM *);
182 PETSC_EXTERN PetscErrorCode DMPlexCreateSphereMesh(MPI_Comm, PetscInt, PetscBool, DM *);
183 PETSC_EXTERN PetscErrorCode DMPlexCreateHexCylinderMesh(MPI_Comm, PetscInt, DMBoundaryType, DM *);
184 PETSC_EXTERN PetscErrorCode DMPlexCreateWedgeCylinderMesh(MPI_Comm, PetscInt, PetscBool, DM *);
185 PETSC_EXTERN PetscErrorCode DMPlexCreateWedgeBoxMesh(MPI_Comm, const PetscInt[], const PetscReal[], const PetscReal[], const DMBoundaryType[], PetscBool, PetscBool, DM *);
186 PETSC_EXTERN PetscErrorCode DMPlexExtrude(DM, PetscInt, PetscReal, PetscBool, PetscBool, DM *);
187 PETSC_EXTERN PetscErrorCode DMPlexCreateConeSection(DM, PetscSection *);
188 
189 PETSC_EXTERN PetscErrorCode DMPlexCheckSymmetry(DM);
190 PETSC_EXTERN PetscErrorCode DMPlexCheckSkeleton(DM, PetscInt);
191 PETSC_EXTERN PetscErrorCode DMPlexCheckFaces(DM, PetscInt);
192 PETSC_EXTERN PetscErrorCode DMPlexCheckGeometry(DM);
193 PETSC_EXTERN PetscErrorCode DMPlexCheckPointSF(DM);
194 PETSC_EXTERN PetscErrorCode DMPlexCheckInterfaceCones(DM);
195 PETSC_EXTERN PetscErrorCode DMPlexCheckCellShape(DM, PetscBool, PetscReal);
196 PETSC_EXTERN PetscErrorCode DMPlexComputeOrthogonalQuality(DM, PetscFV, PetscReal, Vec *, DMLabel *);
197 
198 PETSC_EXTERN PetscErrorCode DMPlexTriangleSetOptions(DM, const char *);
199 PETSC_EXTERN PetscErrorCode DMPlexTetgenSetOptions(DM, const char *);
200 
201 PETSC_EXTERN PetscErrorCode DMPlexCreateFromFile(MPI_Comm, const char[], PetscBool, DM *);
202 PETSC_EXTERN PetscErrorCode DMPlexCreateExodus(MPI_Comm, PetscInt, PetscBool, DM *);
203 PETSC_EXTERN PetscErrorCode DMPlexCreateExodusFromFile(MPI_Comm, const char [], PetscBool, DM *);
204 PETSC_EXTERN PetscErrorCode DMPlexCreateCGNS(MPI_Comm, PetscInt, PetscBool, DM *);
205 PETSC_EXTERN PetscErrorCode DMPlexCreateCGNSFromFile(MPI_Comm, const char[], PetscBool, DM *);
206 PETSC_EXTERN PetscErrorCode DMPlexCreateGmsh(MPI_Comm, PetscViewer, PetscBool, DM *);
207 PETSC_EXTERN PetscErrorCode DMPlexCreateGmshFromFile(MPI_Comm, const char [], PetscBool, DM *);
208 PETSC_EXTERN PetscErrorCode DMPlexCreateFluent(MPI_Comm, PetscViewer, PetscBool, DM *);
209 PETSC_EXTERN PetscErrorCode DMPlexCreateFluentFromFile(MPI_Comm, const char [], PetscBool, DM *);
210 PETSC_EXTERN PetscErrorCode DMPlexCreateMedFromFile(MPI_Comm, const char [], PetscBool, DM *);
211 PETSC_EXTERN PetscErrorCode DMPlexCreatePLYFromFile(MPI_Comm, const char [], PetscBool, DM *);
212 
213 PETSC_EXTERN PetscErrorCode PetscViewerExodusIIGetId(PetscViewer, int *);
214 
215 /* Mesh Partitioning and Distribution */
216 PETSC_EXTERN PetscErrorCode DMPlexCreateNeighborCSR(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **);
217 PETSC_EXTERN PetscErrorCode DMPlexGetPartitioner(DM, PetscPartitioner *);
218 PETSC_EXTERN PetscErrorCode DMPlexSetPartitioner(DM, PetscPartitioner);
219 PETSC_EXTERN PetscErrorCode DMPlexCreatePartition(DM, const char[], PetscInt, PetscBool, PetscSection *, IS *, PetscSection *, IS *);
220 PETSC_EXTERN PetscErrorCode DMPlexCreatePartitionerGraph(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **, IS *);
221 PETSC_EXTERN PetscErrorCode DMPlexCreatePartitionClosure(DM, PetscSection, IS, PetscSection *, IS *);
222 PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelInvert(DM, DMLabel, PetscSF, DMLabel);
223 PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelClosure(DM, DMLabel);
224 PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelAdjacency(DM, DMLabel);
225 PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelPropagate(DM, DMLabel);
226 PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelCreateSF(DM, DMLabel, PetscSF *);
227 PETSC_EXTERN PetscErrorCode DMPlexSetPartitionBalance(DM, PetscBool);
228 PETSC_EXTERN PetscErrorCode DMPlexGetPartitionBalance(DM, PetscBool *);
229 PETSC_EXTERN PetscErrorCode DMPlexIsDistributed(DM, PetscBool *);
230 PETSC_EXTERN PetscErrorCode DMPlexDistribute(DM, PetscInt, PetscSF*, DM*);
231 PETSC_EXTERN PetscErrorCode DMPlexDistributeOverlap(DM, PetscInt, PetscSF *, DM *);
232 PETSC_EXTERN PetscErrorCode DMPlexGetOverlap(DM, PetscInt *);
233 PETSC_EXTERN PetscErrorCode DMPlexDistributeField(DM,PetscSF,PetscSection,Vec,PetscSection,Vec);
234 PETSC_EXTERN PetscErrorCode DMPlexDistributeFieldIS(DM, PetscSF, PetscSection, IS, PetscSection, IS *);
235 PETSC_EXTERN PetscErrorCode DMPlexDistributeData(DM,PetscSF,PetscSection,MPI_Datatype,void*,PetscSection,void**);
236 PETSC_EXTERN PetscErrorCode DMPlexRebalanceSharedPoints(DM, PetscInt, PetscBool, PetscBool, PetscBool*);
237 PETSC_EXTERN PetscErrorCode DMPlexMigrate(DM, PetscSF, DM);
238 PETSC_EXTERN PetscErrorCode DMPlexGetGatherDM(DM, PetscSF*, DM*);
239 PETSC_EXTERN PetscErrorCode DMPlexGetRedundantDM(DM, PetscSF*, DM*);
240 PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUser(DM, PetscErrorCode (*)(DM,PetscInt,PetscInt*,PetscInt[],void*),void*);
241 PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUser(DM, PetscErrorCode (**)(DM,PetscInt,PetscInt*,PetscInt[],void*),void**);
242 PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseCone(DM,PetscBool);
243 PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseCone(DM,PetscBool*);
244 PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseClosure(DM,PetscBool);
245 PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseClosure(DM,PetscBool*);
246 PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseAnchors(DM,PetscBool);
247 PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseAnchors(DM,PetscBool*);
248 PETSC_EXTERN PetscErrorCode DMPlexGetAdjacency(DM, PetscInt, PetscInt *, PetscInt *[]);
249 PETSC_EXTERN PetscErrorCode DMPlexSetMigrationSF(DM, PetscSF);
250 PETSC_EXTERN PetscErrorCode DMPlexGetMigrationSF(DM, PetscSF *);
251 
252 PETSC_EXTERN PetscErrorCode DMPlexGetOrdering(DM, MatOrderingType, DMLabel, IS *);
253 PETSC_EXTERN PetscErrorCode DMPlexPermute(DM, IS, DM *);
254 
255 PETSC_EXTERN PetscErrorCode DMPlexCreateProcessSF(DM, PetscSF, IS *, PetscSF *);
256 PETSC_EXTERN PetscErrorCode DMPlexCreateTwoSidedProcessSF(DM, PetscSF, PetscSection, IS, PetscSection, IS, IS *, PetscSF *);
257 PETSC_EXTERN PetscErrorCode DMPlexDistributeOwnership(DM, PetscSection, IS *, PetscSection, IS *);
258 PETSC_EXTERN PetscErrorCode DMPlexCreateOverlapLabel(DM, PetscInt, PetscSection, IS, PetscSection, IS, DMLabel *);
259 PETSC_EXTERN PetscErrorCode DMPlexCreateOverlapMigrationSF(DM, PetscSF, PetscSF *);
260 PETSC_EXTERN PetscErrorCode DMPlexStratifyMigrationSF(DM, PetscSF, PetscSF *);
261 
262 /* Submesh Support */
263 PETSC_EXTERN PetscErrorCode DMPlexCreateSubmesh(DM, DMLabel, PetscInt, PetscBool, DM*);
264 PETSC_EXTERN PetscErrorCode DMPlexCreateHybridMesh(DM, DMLabel, DMLabel, DMLabel *, DMLabel *, DM *, DM *);
265 PETSC_EXTERN PetscErrorCode DMPlexGetSubpointMap(DM, DMLabel*);
266 PETSC_EXTERN PetscErrorCode DMPlexSetSubpointMap(DM, DMLabel);
267 PETSC_EXTERN PetscErrorCode DMPlexGetSubpointIS(DM, IS *);
268 
269 PETSC_EXTERN PetscErrorCode DMGetEnclosureRelation(DM, DM, DMEnclosureType *);
270 PETSC_EXTERN PetscErrorCode DMGetEnclosurePoint(DM, DM, DMEnclosureType, PetscInt, PetscInt *);
271 
272 PETSC_EXTERN PetscErrorCode DMPlexLabelComplete(DM, DMLabel);
273 PETSC_EXTERN PetscErrorCode DMPlexLabelCohesiveComplete(DM, DMLabel, DMLabel, PetscBool, DM);
274 PETSC_EXTERN PetscErrorCode DMPlexLabelAddCells(DM, DMLabel);
275 PETSC_EXTERN PetscErrorCode DMPlexLabelAddFaceCells(DM, DMLabel);
276 PETSC_EXTERN PetscErrorCode DMPlexLabelClearCells(DM, DMLabel);
277 
278 PETSC_EXTERN PetscErrorCode DMPlexGetRefinementLimit(DM, PetscReal *);
279 PETSC_EXTERN PetscErrorCode DMPlexSetRefinementLimit(DM, PetscReal);
280 PETSC_EXTERN PetscErrorCode DMPlexGetRefinementUniform(DM, PetscBool *);
281 PETSC_EXTERN PetscErrorCode DMPlexSetRefinementUniform(DM, PetscBool);
282 PETSC_EXTERN PetscErrorCode DMPlexGetRefinementFunction(DM, PetscErrorCode (**)(const PetscReal [], PetscReal *));
283 PETSC_EXTERN PetscErrorCode DMPlexSetRefinementFunction(DM, PetscErrorCode (*)(const PetscReal [], PetscReal *));
284 PETSC_EXTERN PetscErrorCode DMPlexCreateCoarsePointIS(DM, IS *);
285 PETSC_EXTERN PetscErrorCode DMPlexGetRegularRefinement(DM, PetscBool *);
286 PETSC_EXTERN PetscErrorCode DMPlexSetRegularRefinement(DM, PetscBool);
287 PETSC_EXTERN PetscErrorCode DMPlexGetCellRefinerType(DM, DMPlexCellRefinerType *);
288 PETSC_EXTERN PetscErrorCode DMPlexSetCellRefinerType(DM, DMPlexCellRefinerType);
289 
290 /* Support for cell-vertex meshes */
291 PETSC_EXTERN PetscErrorCode DMPlexGetNumFaceVertices(DM, PetscInt, PetscInt, PetscInt *);
292 PETSC_EXTERN PetscErrorCode DMPlexGetOrientedFace(DM, PetscInt, PetscInt, const PetscInt [], PetscInt, PetscInt [], PetscInt [], PetscInt [], PetscBool *);
293 
294 /* Geometry Support */
295 PETSC_EXTERN PetscErrorCode DMPlexGetMinRadius(DM, PetscReal *);
296 PETSC_EXTERN PetscErrorCode DMPlexSetMinRadius(DM, PetscReal);
297 PETSC_EXTERN PetscErrorCode DMPlexComputeProjection2Dto1D(PetscScalar[], PetscReal[]);
298 PETSC_EXTERN PetscErrorCode DMPlexComputeProjection3Dto1D(PetscScalar[], PetscReal[]);
299 PETSC_EXTERN PetscErrorCode DMPlexComputeProjection3Dto2D(PetscInt, PetscScalar[], PetscReal[]);
300 
301 /* Point Location */
302 typedef struct _PetscGridHash *PetscGridHash;
303 PETSC_EXTERN PetscErrorCode PetscGridHashCreate(MPI_Comm, PetscInt, const PetscScalar[], PetscGridHash *);
304 PETSC_EXTERN PetscErrorCode PetscGridHashEnlarge(PetscGridHash, const PetscScalar []);
305 PETSC_EXTERN PetscErrorCode PetscGridHashSetGrid(PetscGridHash, const PetscInt [], const PetscReal []);
306 PETSC_EXTERN PetscErrorCode PetscGridHashGetEnclosingBox(PetscGridHash, PetscInt, const PetscScalar [], PetscInt [], PetscInt []);
307 PETSC_EXTERN PetscErrorCode PetscGridHashDestroy(PetscGridHash *);
308 PETSC_EXTERN PetscErrorCode DMPlexFindVertices(DM, PetscInt, const PetscReal [], PetscReal, PetscInt []);
309 
310 /* FVM Support */
311 PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFVM(DM, PetscInt, PetscReal *, PetscReal [], PetscReal []);
312 PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFVM(DM, Vec *, Vec *);
313 PETSC_EXTERN PetscErrorCode DMPlexComputeGradientFVM(DM, PetscFV, Vec, Vec, DM *);
314 PETSC_EXTERN PetscErrorCode DMPlexGetDataFVM(DM, PetscFV, Vec *, Vec *, DM *);
315 
316 /* FEM Support */
317 PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFEM(DM, Vec *);
318 PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValues(DM, PetscBool, Vec, PetscReal, Vec, Vec, Vec);
319 PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssential(DM, PetscReal, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt[],
320                                                                 PetscErrorCode (*)(PetscInt, PetscReal, const PetscReal[], PetscInt, PetscScalar *, void *), void *, Vec );
321 PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssentialField(DM, PetscReal, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
322                                                                      void (*)(PetscInt, PetscInt, PetscInt,
323                                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
324                                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
325                                                                               PetscReal, const PetscReal[], PetscInt, const PetscScalar[],
326                                                                               PetscScalar[]),
327                                                                      void *, Vec);
328 PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssentialBdField(DM, PetscReal, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
329                                                                        void (*)(PetscInt, PetscInt, PetscInt,
330                                                                                 const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
331                                                                                 const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
332                                                                                 PetscReal, const PetscReal[], const PetscReal[], PetscInt, const PetscScalar[],
333                                                                                 PetscScalar[]),
334                                                                        void *, Vec);
335 PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesRiemann(DM, PetscReal, Vec, Vec, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
336                                                               PetscErrorCode (*)(PetscReal,const PetscReal*,const PetscReal*,const PetscScalar*,PetscScalar*,void*), void *, Vec);
337 PETSC_EXTERN PetscErrorCode DMPlexMarkBoundaryFaces(DM, PetscInt, DMLabel);
338 
339 PETSC_EXTERN PetscErrorCode DMPlexCreateSection(DM, DMLabel [], const PetscInt [], const PetscInt [], PetscInt, const PetscInt [], const IS [], const IS [], IS, PetscSection *);
340 PETSC_EXTERN PetscErrorCode DMPlexGetSubdomainSection(DM, PetscSection*);
341 
342 PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryAffineFEM(DM, PetscInt, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
343 PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFEM(DM, PetscInt, PetscQuadrature, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
344 PETSC_EXTERN PetscErrorCode DMPlexCoordinatesToReference(DM, PetscInt, PetscInt, const PetscReal [], PetscReal[]);
345 PETSC_EXTERN PetscErrorCode DMPlexReferenceToCoordinates(DM, PetscInt, PetscInt, const PetscReal [], PetscReal[]);
346 PETSC_EXTERN PetscErrorCode DMPlexShearGeometry(DM, DMDirection, PetscReal[]);
347 PETSC_EXTERN PetscErrorCode DMPlexRemapGeometry(DM, PetscReal,
348                                                 void (*)(PetscInt, PetscInt, PetscInt,
349                                                          const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
350                                                          const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
351                                                          PetscReal, const PetscReal[], PetscInt, const PetscScalar[], PetscScalar[]));
352 
353 PETSC_EXTERN PetscErrorCode DMPlexVecGetClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
354 PETSC_EXTERN PetscErrorCode DMPlexVecRestoreClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
355 PETSC_EXTERN PetscErrorCode DMPlexVecSetClosure(DM, PetscSection, Vec, PetscInt, const PetscScalar[], InsertMode);
356 PETSC_EXTERN PetscErrorCode DMPlexMatSetClosure(DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
357 PETSC_EXTERN PetscErrorCode DMPlexMatSetClosureGeneral(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
358 PETSC_EXTERN PetscErrorCode DMPlexGetClosureIndices(DM, PetscSection, PetscSection, PetscInt, PetscBool, PetscInt *, PetscInt *[], PetscInt *, PetscScalar *[]);
359 PETSC_EXTERN PetscErrorCode DMPlexRestoreClosureIndices(DM, PetscSection, PetscSection, PetscInt, PetscBool, PetscInt *, PetscInt *[], PetscInt *, PetscScalar *[]);
360 PETSC_EXTERN PetscErrorCode DMPlexMatSetClosureRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
361 PETSC_EXTERN PetscErrorCode DMPlexMatGetClosureIndicesRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, PetscInt, PetscInt[], PetscInt[]);
362 PETSC_EXTERN PetscErrorCode DMPlexCreateClosureIndex(DM, PetscSection);
363 PETSC_EXTERN PetscErrorCode DMPlexSetClosurePermutationTensor(DM, PetscInt, PetscSection);
364 
365 PETSC_EXTERN PetscErrorCode DMPlexConstructGhostCells(DM, const char [], PetscInt *, DM *);
366 PETSC_EXTERN PetscErrorCode DMPlexConstructCohesiveCells(DM, DMLabel, DMLabel, DM *);
367 
368 PETSC_EXTERN PetscErrorCode DMPlexGetVTKCellHeight(DM, PetscInt *);
369 PETSC_EXTERN PetscErrorCode DMPlexSetVTKCellHeight(DM, PetscInt);
370 PETSC_EXTERN PetscErrorCode DMPlexVTKWriteAll(PetscObject, PetscViewer);
371 PETSC_EXTERN PetscErrorCode DMPlexGetGhostCellStratum(DM, PetscInt *, PetscInt *);
372 PETSC_EXTERN PetscErrorCode DMPlexGetSimplexOrBoxCells(DM, PetscInt, PetscInt *, PetscInt *);
373 
374 PETSC_EXTERN PetscErrorCode DMPlexGetCellFields(DM, IS, Vec, Vec, Vec, PetscScalar **, PetscScalar **, PetscScalar **);
375 PETSC_EXTERN PetscErrorCode DMPlexRestoreCellFields(DM, IS, Vec, Vec, Vec, PetscScalar **, PetscScalar **, PetscScalar **);
376 PETSC_EXTERN PetscErrorCode DMPlexGetFaceFields(DM, PetscInt, PetscInt, Vec, Vec, Vec, Vec, Vec, PetscInt *, PetscScalar **, PetscScalar **);
377 PETSC_EXTERN PetscErrorCode DMPlexRestoreFaceFields(DM, PetscInt, PetscInt, Vec, Vec, Vec, Vec, Vec, PetscInt *, PetscScalar **, PetscScalar **);
378 PETSC_EXTERN PetscErrorCode DMPlexGetFaceGeometry(DM, PetscInt, PetscInt, Vec, Vec, PetscInt *, PetscFVFaceGeom **, PetscReal **);
379 PETSC_EXTERN PetscErrorCode DMPlexRestoreFaceGeometry(DM, PetscInt, PetscInt, Vec, Vec, PetscInt *, PetscFVFaceGeom **, PetscReal **);
380 
381 PETSC_EXTERN PetscErrorCode DMPlexGetScale(DM, PetscUnit, PetscReal *);
382 PETSC_EXTERN PetscErrorCode DMPlexSetScale(DM, PetscUnit, PetscReal);
383 
384 typedef struct {
385   DM    dm;
386   Vec   u; /* The base vector for the Jacobian action J(u) x */
387   Mat   J; /* Preconditioner for testing */
388   void *user;
389 } JacActionCtx;
390 
391 PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesFEM(DM, Vec);
392 PETSC_EXTERN PetscErrorCode DMPlexSetMaxProjectionHeight(DM, PetscInt);
393 PETSC_EXTERN PetscErrorCode DMPlexGetMaxProjectionHeight(DM, PetscInt*);
394 PETSC_EXTERN PetscErrorCode DMPlexGetActivePoint(DM, PetscInt*);
395 PETSC_EXTERN PetscErrorCode DMPlexSetActivePoint(DM, PetscInt);
396 PETSC_EXTERN PetscErrorCode DMPlexProjectFieldLocal(DM, Vec,
397                                                     void (**)(PetscInt, PetscInt, PetscInt,
398                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
399                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
400                                                               PetscReal, const PetscReal [], PetscScalar []), InsertMode, Vec);
401 PETSC_EXTERN PetscErrorCode DMPlexComputeL2DiffLocal(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, PetscReal *);
402 PETSC_EXTERN PetscErrorCode DMPlexComputeL2FieldDiff(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, PetscReal[]);
403 PETSC_EXTERN PetscErrorCode DMPlexComputeL2DiffVec(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, Vec);
404 PETSC_EXTERN PetscErrorCode DMPlexComputeCellwiseIntegralFEM(DM, Vec, Vec, void *);
405 PETSC_EXTERN PetscErrorCode DMPlexComputeIntegralFEM(DM, Vec, PetscScalar *, void *);
406 PETSC_EXTERN PetscErrorCode DMPlexComputeBdIntegral(DM, Vec, DMLabel, PetscInt, const PetscInt[],
407                                                     void (*)(PetscInt, PetscInt, PetscInt,
408                                                              const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
409                                                              const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
410                                                              PetscReal, const PetscReal[], const PetscReal[], PetscInt, const PetscScalar[], PetscScalar[]),
411                                                     PetscScalar *, void *);
412 PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorNested(DM, DM, PetscBool, Mat, void *);
413 PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorGeneral(DM, DM, Mat, void *);
414 PETSC_EXTERN PetscErrorCode DMPlexComputeGradientClementInterpolant(DM, Vec, Vec);
415 PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorFEM(DM, DM, VecScatter *, void *);
416 PETSC_EXTERN PetscErrorCode DMPlexComputeMassMatrixNested(DM, DM, Mat, void *);
417 PETSC_EXTERN PetscErrorCode DMPlexComputeMassMatrixGeneral(DM, DM, Mat, void *);
418 
419 PETSC_EXTERN PetscErrorCode DMPlexCreateRigidBody(DM, MatNullSpace *);
420 PETSC_EXTERN PetscErrorCode DMPlexCreateRigidBodies(DM, PetscInt, DMLabel, const PetscInt[], const PetscInt[], MatNullSpace *);
421 
422 PETSC_EXTERN PetscErrorCode DMPlexSetSNESLocalFEM(DM,void *,void *,void *);
423 PETSC_EXTERN PetscErrorCode DMPlexSNESComputeBoundaryFEM(DM, Vec, void *);
424 PETSC_EXTERN PetscErrorCode DMPlexSNESComputeResidualFEM(DM, Vec, Vec, void *);
425 PETSC_EXTERN PetscErrorCode DMPlexSNESComputeJacobianFEM(DM, Vec, Mat, Mat, void *);
426 PETSC_EXTERN PetscErrorCode DMPlexComputeJacobianAction(DM, IS, PetscReal, PetscReal, Vec, Vec, Vec, Vec, void *);
427 PETSC_EXTERN PetscErrorCode DMPlexComputeBdResidualSingle(DM, PetscReal, DMLabel, PetscInt, const PetscInt[], PetscInt, Vec, Vec, Vec);
428 PETSC_EXTERN PetscErrorCode DMPlexComputeBdJacobianSingle(DM, PetscReal, DMLabel, PetscInt, const PetscInt[], PetscInt, Vec, Vec, PetscReal, Mat, Mat);
429 
430 PETSC_EXTERN PetscErrorCode DMPlexTSComputeBoundary(DM, PetscReal, Vec, Vec, void *);
431 PETSC_EXTERN PetscErrorCode DMPlexTSComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
432 PETSC_EXTERN PetscErrorCode DMPlexTSComputeIFunctionFEM(DM, PetscReal, Vec, Vec, Vec, void *);
433 PETSC_EXTERN PetscErrorCode DMPlexTSComputeIJacobianFEM(DM, PetscReal, Vec, Vec, PetscReal, Mat, Mat, void *);
434 
435 PETSC_EXTERN PetscErrorCode DMPlexComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
436 PETSC_EXTERN PetscErrorCode DMPlexReconstructGradientsFVM(DM,Vec,Vec);
437 
438 /* anchors */
439 PETSC_EXTERN PetscErrorCode DMPlexGetAnchors(DM, PetscSection*, IS*);
440 PETSC_EXTERN PetscErrorCode DMPlexSetAnchors(DM, PetscSection, IS);
441 /* tree */
442 PETSC_EXTERN PetscErrorCode DMPlexSetReferenceTree(DM, DM);
443 PETSC_EXTERN PetscErrorCode DMPlexGetReferenceTree(DM, DM*);
444 PETSC_EXTERN PetscErrorCode DMPlexReferenceTreeGetChildSymmetry(DM, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt *, PetscInt *);
445 PETSC_EXTERN PetscErrorCode DMPlexCreateDefaultReferenceTree(MPI_Comm, PetscInt, PetscBool, DM*);
446 PETSC_EXTERN PetscErrorCode DMPlexSetTree(DM, PetscSection, PetscInt [], PetscInt []);
447 PETSC_EXTERN PetscErrorCode DMPlexGetTree(DM, PetscSection *, PetscInt *[], PetscInt *[], PetscSection *, PetscInt *[]);
448 PETSC_EXTERN PetscErrorCode DMPlexGetTreeParent(DM, PetscInt, PetscInt *, PetscInt *);
449 PETSC_EXTERN PetscErrorCode DMPlexGetTreeChildren(DM, PetscInt, PetscInt *, const PetscInt *[]);
450 PETSC_EXTERN PetscErrorCode DMPlexTreeRefineCell(DM, PetscInt, DM *);
451 PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorReferenceTree(DM, Mat *);
452 PETSC_EXTERN PetscErrorCode DMPlexTransferVecTree(DM,Vec,DM,Vec,PetscSF,PetscSF,PetscInt *,PetscInt *,PetscBool,PetscReal);
453 
454 PETSC_EXTERN PetscErrorCode DMPlexMonitorThroughput(DM, void *);
455 
456 /* natural order */
457 PETSC_EXTERN PetscErrorCode DMPlexCreateGlobalToNaturalSF(DM, PetscSection, PetscSF, PetscSF *);
458 PETSC_EXTERN PetscErrorCode DMPlexSetGlobalToNaturalSF(DM, PetscSF);
459 PETSC_EXTERN PetscErrorCode DMPlexGetGlobalToNaturalSF(DM, PetscSF *);
460 PETSC_EXTERN PetscErrorCode DMPlexGlobalToNaturalBegin(DM, Vec, Vec);
461 PETSC_EXTERN PetscErrorCode DMPlexGlobalToNaturalEnd(DM, Vec, Vec);
462 PETSC_EXTERN PetscErrorCode DMPlexNaturalToGlobalBegin(DM, Vec, Vec);
463 PETSC_EXTERN PetscErrorCode DMPlexNaturalToGlobalEnd(DM, Vec, Vec);
464 
465 /* mesh adaptation */
466 PETSC_EXTERN PetscErrorCode DMPlexAdapt(DM, Vec, const char [], DM *);
467 PETSC_EXTERN PetscErrorCode DMPlexSnapToGeomModel(DM, PetscInt, const PetscScalar[], PetscScalar[]);
468 
469 PETSC_EXTERN PetscErrorCode DMPlexGlobalToLocalBasis(DM, Vec);
470 PETSC_EXTERN PetscErrorCode DMPlexLocalToGlobalBasis(DM, Vec);
471 PETSC_EXTERN PetscErrorCode DMPlexCreateBasisRotation(DM, PetscReal, PetscReal, PetscReal);
472 
473 PETSC_EXTERN PetscErrorCode DMPlexCellRefinerCreate(DM, DMPlexCellRefiner *);
474 PETSC_EXTERN PetscErrorCode DMPlexCellRefinerSetUp(DMPlexCellRefiner);
475 PETSC_EXTERN PetscErrorCode DMPlexCellRefinerDestroy(DMPlexCellRefiner *);
476 PETSC_EXTERN PetscErrorCode DMPlexCellRefinerRefine(DMPlexCellRefiner, DMPolytopeType, PetscInt *, DMPolytopeType *[], PetscInt *[], PetscInt *[], PetscInt *[]);
477 PETSC_EXTERN PetscErrorCode DMPlexCellRefinerGetAffineTransforms(DMPlexCellRefiner, DMPolytopeType, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[]);
478 PETSC_EXTERN PetscErrorCode DMPlexCellRefinerGetAffineFaceTransforms(DMPlexCellRefiner, DMPolytopeType, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[], PetscReal *[]);
479 PETSC_EXTERN PetscErrorCode DMPlexRefineUniform(DM, DMPlexCellRefiner, DM *);
480 #endif
481