Actual source code: petscdmplex.h

petsc-master 2019-08-18
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  1: /*
  2:   DMPlex, for parallel unstructured distributed mesh problems.
  3: */
  4: #if !defined(PETSCDMPLEX_H)
  5: #define PETSCDMPLEX_H

  7:  #include <petscdm.h>
  8:  #include <petscdmplextypes.h>
  9:  #include <petscdt.h>
 10:  #include <petscfe.h>
 11:  #include <petscfv.h>
 12:  #include <petscsftypes.h>
 13:  #include <petscdmfield.h>

 15: PETSC_EXTERN PetscClassId PETSCPARTITIONER_CLASSID;

 17: /*J
 18:   PetscPartitionerType - String with the name of a PETSc graph partitioner

 20:   Level: beginner

 22: .seealso: PetscPartitionerSetType(), PetscPartitioner
 23: J*/
 24: typedef const char *PetscPartitionerType;
 25: #define PETSCPARTITIONERCHACO    "chaco"
 26: #define PETSCPARTITIONERPARMETIS "parmetis"
 27: #define PETSCPARTITIONERPTSCOTCH "ptscotch"
 28: #define PETSCPARTITIONERSHELL    "shell"
 29: #define PETSCPARTITIONERSIMPLE   "simple"
 30: #define PETSCPARTITIONERGATHER   "gather"
 31: #define PETSCPARTITIONERMATPARTITIONING "matpartitioning"

 33: PETSC_EXTERN PetscFunctionList PetscPartitionerList;
 34: PETSC_EXTERN PetscErrorCode PetscPartitionerCreate(MPI_Comm, PetscPartitioner *);
 35: PETSC_EXTERN PetscErrorCode PetscPartitionerDestroy(PetscPartitioner *);
 36: PETSC_EXTERN PetscErrorCode PetscPartitionerSetType(PetscPartitioner, PetscPartitionerType);
 37: PETSC_EXTERN PetscErrorCode PetscPartitionerGetType(PetscPartitioner, PetscPartitionerType *);
 38: PETSC_EXTERN PetscErrorCode PetscPartitionerSetUp(PetscPartitioner);
 39: PETSC_EXTERN PetscErrorCode PetscPartitionerSetFromOptions(PetscPartitioner);
 40: PETSC_STATIC_INLINE PetscErrorCode PetscPartitionerViewFromOptions(PetscPartitioner A,PetscObject B,const char name[]) {return PetscObjectViewFromOptions((PetscObject)A,B,name);}
 41: PETSC_EXTERN PetscErrorCode PetscPartitionerView(PetscPartitioner, PetscViewer);
 42: PETSC_EXTERN PetscErrorCode PetscPartitionerRegister(const char [], PetscErrorCode (*)(PetscPartitioner));
 43: PETSC_EXTERN PetscErrorCode PetscPartitionerRegisterDestroy(void);

 45: PETSC_EXTERN PetscErrorCode PetscPartitionerPartition(PetscPartitioner, DM, PetscSection, IS *);

 47: PETSC_EXTERN PetscErrorCode PetscPartitionerShellSetPartition(PetscPartitioner, PetscInt, const PetscInt[], const PetscInt[]);
 48: PETSC_EXTERN PetscErrorCode PetscPartitionerShellSetRandom(PetscPartitioner, PetscBool);
 49: PETSC_EXTERN PetscErrorCode PetscPartitionerShellGetRandom(PetscPartitioner, PetscBool *);

 51: PETSC_EXTERN PetscErrorCode PetscPartitionerMatPartitioningGetMatPartitioning(PetscPartitioner part, MatPartitioning *mp);

 53: PETSC_EXTERN PetscErrorCode DMPlexCreate(MPI_Comm, DM*);
 54: PETSC_EXTERN PetscErrorCode DMPlexCreateCohesiveSubmesh(DM, PetscBool, const char [], PetscInt, DM *);
 55: PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellList(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const double[], DM*);
 56: PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellListParallel(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const PetscReal[], PetscSF *, DM *);
 57: PETSC_EXTERN PetscErrorCode DMPlexCreateFromDAG(DM, PetscInt, const PetscInt [], const PetscInt [], const PetscInt [], const PetscInt [], const PetscScalar []);
 58: PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceCell(MPI_Comm, PetscInt, PetscBool, DM*);
 59: PETSC_EXTERN PetscErrorCode DMPlexSetOptionsPrefix(DM, const char []);
 60: PETSC_EXTERN PetscErrorCode DMPlexGetChart(DM, PetscInt *, PetscInt *);
 61: PETSC_EXTERN PetscErrorCode DMPlexSetChart(DM, PetscInt, PetscInt);
 62: PETSC_EXTERN PetscErrorCode DMPlexGetConeSize(DM, PetscInt, PetscInt *);
 63: PETSC_EXTERN PetscErrorCode DMPlexSetConeSize(DM, PetscInt, PetscInt);
 64: PETSC_EXTERN PetscErrorCode DMPlexAddConeSize(DM, PetscInt, PetscInt);
 65: PETSC_EXTERN PetscErrorCode DMPlexGetCone(DM, PetscInt, const PetscInt *[]);
 66: PETSC_EXTERN PetscErrorCode DMPlexGetConeTuple(DM, IS, PetscSection *, IS *);
 67: PETSC_EXTERN PetscErrorCode DMPlexGetConeRecursive(DM, IS, PetscInt *, IS *[], PetscSection *[]);
 68: PETSC_EXTERN PetscErrorCode DMPlexRestoreConeRecursive(DM, IS, PetscInt *, IS *[], PetscSection *[]);
 69: PETSC_EXTERN PetscErrorCode DMPlexGetConeRecursiveVertices(DM, IS, IS *);
 70: PETSC_EXTERN PetscErrorCode DMPlexSetCone(DM, PetscInt, const PetscInt[]);
 71: PETSC_EXTERN PetscErrorCode DMPlexInsertCone(DM, PetscInt, PetscInt, PetscInt);
 72: PETSC_EXTERN PetscErrorCode DMPlexInsertConeOrientation(DM, PetscInt, PetscInt, PetscInt);
 73: PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientation(DM, PetscInt, const PetscInt *[]);
 74: PETSC_EXTERN PetscErrorCode DMPlexSetConeOrientation(DM, PetscInt, const PetscInt[]);
 75: PETSC_EXTERN PetscErrorCode DMPlexGetSupportSize(DM, PetscInt, PetscInt *);
 76: PETSC_EXTERN PetscErrorCode DMPlexSetSupportSize(DM, PetscInt, PetscInt);
 77: PETSC_EXTERN PetscErrorCode DMPlexGetSupport(DM, PetscInt, const PetscInt *[]);
 78: PETSC_EXTERN PetscErrorCode DMPlexSetSupport(DM, PetscInt, const PetscInt[]);
 79: PETSC_EXTERN PetscErrorCode DMPlexInsertSupport(DM, PetscInt, PetscInt, PetscInt);
 80: PETSC_EXTERN PetscErrorCode DMPlexGetConeSection(DM, PetscSection *);
 81: PETSC_EXTERN PetscErrorCode DMPlexGetSupportSection(DM, PetscSection *);
 82: PETSC_EXTERN PetscErrorCode DMPlexGetCones(DM, PetscInt *[]);
 83: PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientations(DM, PetscInt *[]);
 84: PETSC_EXTERN PetscErrorCode DMPlexGetMaxSizes(DM, PetscInt *, PetscInt *);
 85: PETSC_EXTERN PetscErrorCode DMPlexSymmetrize(DM);
 86: PETSC_EXTERN PetscErrorCode DMPlexStratify(DM);
 87: PETSC_EXTERN PetscErrorCode DMPlexEqual(DM,DM,PetscBool*);
 88: PETSC_EXTERN PetscErrorCode DMPlexReverseCell(DM, PetscInt);
 89: PETSC_EXTERN PetscErrorCode DMPlexOrientCell(DM,PetscInt,PetscInt,const PetscInt[]);
 90: PETSC_EXTERN PetscErrorCode DMPlexOrient(DM);
 91: PETSC_EXTERN PetscErrorCode DMPlexInterpolate(DM, DM *);
 92: PETSC_EXTERN PetscErrorCode DMPlexUninterpolate(DM, DM *);
 93: PETSC_EXTERN PetscErrorCode DMPlexInterpolatePointSF(DM, PetscSF);
 94: PETSC_EXTERN PetscErrorCode DMPlexPreallocateOperator(DM, PetscInt, PetscInt[], PetscInt[], PetscInt[], PetscInt[], Mat, PetscBool);
 95: PETSC_EXTERN PetscErrorCode DMPlexGetPointLocal(DM,PetscInt,PetscInt*,PetscInt*);
 96: PETSC_EXTERN PetscErrorCode DMPlexPointLocalRead(DM,PetscInt,const PetscScalar*,void*);
 97: PETSC_EXTERN PetscErrorCode DMPlexPointLocalRef(DM,PetscInt,PetscScalar*,void*);
 98: PETSC_EXTERN PetscErrorCode DMPlexGetPointLocalField(DM,PetscInt,PetscInt,PetscInt*,PetscInt*);
 99: PETSC_EXTERN PetscErrorCode DMPlexPointLocalFieldRef(DM,PetscInt,PetscInt,PetscScalar*,void*);
100: PETSC_EXTERN PetscErrorCode DMPlexPointLocalFieldRead(DM,PetscInt,PetscInt,const PetscScalar*,void*);
101: PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobal(DM,PetscInt,PetscInt*,PetscInt*);
102: PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRead(DM,PetscInt,const PetscScalar*,const void*);
103: PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRef(DM,PetscInt,PetscScalar*,void*);
104: PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobalField(DM,PetscInt,PetscInt,PetscInt*,PetscInt*);
105: PETSC_EXTERN PetscErrorCode DMPlexPointGlobalFieldRef(DM,PetscInt,PetscInt,PetscScalar*,void*);
106: PETSC_EXTERN PetscErrorCode DMPlexPointGlobalFieldRead(DM,PetscInt,PetscInt,const PetscScalar*, void*);

108: PETSC_EXTERN PetscErrorCode DMPlexFilter(DM, DMLabel, PetscInt, DM *);
109: PETSC_EXTERN PetscErrorCode DMPlexGetCellNumbering(DM, IS *);
110: PETSC_EXTERN PetscErrorCode DMPlexGetVertexNumbering(DM, IS *);
111: PETSC_EXTERN PetscErrorCode DMPlexCreatePointNumbering(DM, IS *);
112: PETSC_EXTERN PetscErrorCode DMPlexCreateRankField(DM, Vec *);
113: PETSC_EXTERN PetscErrorCode DMPlexCreateLabelField(DM, DMLabel, Vec *);

115: PETSC_EXTERN PetscErrorCode DMPlexGetDepth(DM, PetscInt *);
116: PETSC_EXTERN PetscErrorCode DMPlexGetDepthLabel(DM, DMLabel *);
117: PETSC_EXTERN PetscErrorCode DMPlexGetDepthStratum(DM, PetscInt, PetscInt *, PetscInt *);
118: PETSC_EXTERN PetscErrorCode DMPlexGetHeightStratum(DM, PetscInt, PetscInt *, PetscInt *);

120: /* Topological Operations */
121: PETSC_EXTERN PetscErrorCode DMPlexGetMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
122: PETSC_EXTERN PetscErrorCode DMPlexGetFullMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
123: PETSC_EXTERN PetscErrorCode DMPlexRestoreMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
124: PETSC_EXTERN PetscErrorCode DMPlexGetJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
125: PETSC_EXTERN PetscErrorCode DMPlexGetFullJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
126: PETSC_EXTERN PetscErrorCode DMPlexRestoreJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
127: PETSC_EXTERN PetscErrorCode DMPlexGetTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
128: PETSC_EXTERN PetscErrorCode DMPlexRestoreTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);

130: /* Mesh Generation */
131: PETSC_EXTERN PetscErrorCode DMPlexGenerate(DM, const char [], PetscBool , DM *);
132: PETSC_EXTERN PetscErrorCode DMPlexGenerateRegister(const char[],PetscErrorCode (*)(DM,PetscBool,DM*),PetscErrorCode (*)(DM,double*,DM*),PetscInt);
133: PETSC_EXTERN PetscErrorCode DMPlexGenerateRegisterAll(void);
134: PETSC_EXTERN PetscErrorCode DMPlexGenerateRegisterDestroy(void);
135: PETSC_EXTERN PetscErrorCode DMPlexCopyCoordinates(DM, DM);
136: PETSC_EXTERN PetscErrorCode DMPlexCreateDoublet(MPI_Comm, PetscInt, PetscBool, PetscBool, PetscBool, PetscReal, DM *);
137: PETSC_EXTERN PetscErrorCode DMPlexCreateSquareBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
138: PETSC_EXTERN PetscErrorCode DMPlexCreateCubeBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
139: PETSC_EXTERN PetscErrorCode DMPlexCreateBoxMesh(MPI_Comm, PetscInt, PetscBool, const PetscInt[], const PetscReal[], const PetscReal[], const DMBoundaryType[], PetscBool, DM *);
140: PETSC_EXTERN PetscErrorCode DMPlexCreateSphereMesh(MPI_Comm, PetscInt, PetscBool, DM *);
141: PETSC_EXTERN PetscErrorCode DMPlexCreateHexCylinderMesh(MPI_Comm, PetscInt, DMBoundaryType, DM *);
142: PETSC_EXTERN PetscErrorCode DMPlexCreateWedgeCylinderMesh(MPI_Comm, PetscInt, PetscBool, DM *);
143: PETSC_EXTERN PetscErrorCode DMPlexCreateWedgeBoxMesh(MPI_Comm, const PetscInt[], const PetscReal[], const PetscReal[], const DMBoundaryType[], PetscBool, PetscBool, DM *);
144: PETSC_EXTERN PetscErrorCode DMPlexExtrude(DM, PetscInt, PetscReal, PetscBool, PetscBool, DM *);
145: PETSC_EXTERN PetscErrorCode DMPlexCreateConeSection(DM, PetscSection *);
146: PETSC_EXTERN PetscErrorCode DMPlexInvertCell(PetscInt, PetscInt, int []);

148: PETSC_EXTERN PetscErrorCode DMPlexCheckSymmetry(DM);
149: PETSC_EXTERN PetscErrorCode DMPlexCheckSkeleton(DM, PetscInt);
150: PETSC_EXTERN PetscErrorCode DMPlexCheckFaces(DM, PetscInt);
151: PETSC_EXTERN PetscErrorCode DMPlexCheckGeometry(DM);
152: PETSC_EXTERN PetscErrorCode DMPlexCheckPointSF(DM);
153: PETSC_EXTERN PetscErrorCode DMPlexCheckConesConformOnInterfaces(DM);
154: PETSC_EXTERN PetscErrorCode DMPlexCheckCellShape(DM,PetscBool);

156: PETSC_EXTERN PetscErrorCode DMPlexTriangleSetOptions(DM, const char *);
157: PETSC_EXTERN PetscErrorCode DMPlexTetgenSetOptions(DM, const char *);

159: PETSC_EXTERN PetscErrorCode DMPlexCreateFromFile(MPI_Comm, const char[], PetscBool, DM *);
160: PETSC_EXTERN PetscErrorCode DMPlexCreateExodus(MPI_Comm, PetscInt, PetscBool, DM *);
161: PETSC_EXTERN PetscErrorCode DMPlexCreateExodusFromFile(MPI_Comm, const char [], PetscBool, DM *);
162: PETSC_EXTERN PetscErrorCode DMPlexCreateCGNS(MPI_Comm, PetscInt, PetscBool, DM *);
163: PETSC_EXTERN PetscErrorCode DMPlexCreateCGNSFromFile(MPI_Comm, const char[], PetscBool, DM *);
164: PETSC_EXTERN PetscErrorCode DMPlexCreateGmsh(MPI_Comm, PetscViewer, PetscBool, DM *);
165: PETSC_EXTERN PetscErrorCode DMPlexCreateGmshFromFile(MPI_Comm, const char [], PetscBool, DM *);
166: PETSC_EXTERN PetscErrorCode DMPlexCreateFluent(MPI_Comm, PetscViewer, PetscBool, DM *);
167: PETSC_EXTERN PetscErrorCode DMPlexCreateFluentFromFile(MPI_Comm, const char [], PetscBool, DM *);
168: PETSC_EXTERN PetscErrorCode DMPlexCreateMedFromFile(MPI_Comm, const char [], PetscBool, DM *);
169: PETSC_EXTERN PetscErrorCode DMPlexCreatePLYFromFile(MPI_Comm, const char [], PetscBool, DM *);

171: /* Mesh Partitioning and Distribution */
172: PETSC_EXTERN PetscErrorCode DMPlexCreateNeighborCSR(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **);
173: PETSC_EXTERN PetscErrorCode DMPlexGetPartitioner(DM, PetscPartitioner *);
174: PETSC_EXTERN PetscErrorCode DMPlexSetPartitioner(DM, PetscPartitioner);
175: PETSC_EXTERN PetscErrorCode DMPlexCreatePartition(DM, const char[], PetscInt, PetscBool, PetscSection *, IS *, PetscSection *, IS *);
176: PETSC_EXTERN PetscErrorCode DMPlexCreatePartitionerGraph(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **, IS *);
177: PETSC_EXTERN PetscErrorCode DMPlexCreatePartitionClosure(DM, PetscSection, IS, PetscSection *, IS *);
178: PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelInvert(DM, DMLabel, PetscSF, DMLabel);
179: PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelClosure(DM, DMLabel);
180: PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelAdjacency(DM, DMLabel);
181: PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelPropagate(DM, DMLabel);
182: PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelCreateSF(DM, DMLabel, PetscSF *);
183: PETSC_EXTERN PetscErrorCode DMPlexSetPartitionBalance(DM, PetscBool);
184: PETSC_EXTERN PetscErrorCode DMPlexGetPartitionBalance(DM, PetscBool *);
185: PETSC_EXTERN PetscErrorCode DMPlexDistribute(DM, PetscInt, PetscSF*, DM*);
186: PETSC_EXTERN PetscErrorCode DMPlexDistributeOverlap(DM, PetscInt, PetscSF *, DM *);
187: PETSC_EXTERN PetscErrorCode DMPlexDistributeField(DM,PetscSF,PetscSection,Vec,PetscSection,Vec);
188: PETSC_EXTERN PetscErrorCode DMPlexDistributeFieldIS(DM, PetscSF, PetscSection, IS, PetscSection, IS *);
189: PETSC_EXTERN PetscErrorCode DMPlexDistributeData(DM,PetscSF,PetscSection,MPI_Datatype,void*,PetscSection,void**);
190: PETSC_EXTERN PetscErrorCode DMPlexRebalanceSharedPoints(DM, PetscInt, PetscBool, PetscBool, PetscBool*);
191: PETSC_EXTERN PetscErrorCode DMPlexMigrate(DM, PetscSF, DM);
192: PETSC_EXTERN PetscErrorCode DMPlexGetGatherDM(DM, PetscSF*, DM*);
193: PETSC_EXTERN PetscErrorCode DMPlexGetRedundantDM(DM, PetscSF*, DM*);
194: PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUser(DM, PetscErrorCode (*)(DM,PetscInt,PetscInt*,PetscInt[],void*),void*);
195: PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUser(DM, PetscErrorCode (**)(DM,PetscInt,PetscInt*,PetscInt[],void*),void**);
196: PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseCone(DM,PetscBool);
197: PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseCone(DM,PetscBool*);
198: PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseClosure(DM,PetscBool);
199: PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseClosure(DM,PetscBool*);
200: PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseAnchors(DM,PetscBool);
201: PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseAnchors(DM,PetscBool*);
202: PETSC_EXTERN PetscErrorCode DMPlexGetAdjacency(DM, PetscInt, PetscInt *, PetscInt *[]);
203: PETSC_EXTERN PetscErrorCode DMPlexSetMigrationSF(DM, PetscSF);
204: PETSC_EXTERN PetscErrorCode DMPlexGetMigrationSF(DM, PetscSF *);

206: PETSC_EXTERN PetscErrorCode DMPlexGetOrdering(DM, MatOrderingType, DMLabel, IS *);
207: PETSC_EXTERN PetscErrorCode DMPlexPermute(DM, IS, DM *);

209: PETSC_EXTERN PetscErrorCode DMPlexCreateProcessSF(DM, PetscSF, IS *, PetscSF *);
210: PETSC_EXTERN PetscErrorCode DMPlexCreateTwoSidedProcessSF(DM, PetscSF, PetscSection, IS, PetscSection, IS, IS *, PetscSF *);
211: PETSC_EXTERN PetscErrorCode DMPlexDistributeOwnership(DM, PetscSection, IS *, PetscSection, IS *);
212: PETSC_EXTERN PetscErrorCode DMPlexCreateOverlap(DM, PetscInt, PetscSection, IS, PetscSection, IS, DMLabel *);
213: PETSC_EXTERN PetscErrorCode DMPlexCreateOverlapMigrationSF(DM, PetscSF, PetscSF *);
214: PETSC_EXTERN PetscErrorCode DMPlexStratifyMigrationSF(DM, PetscSF, PetscSF *);

216: /* Submesh Support */
217: PETSC_EXTERN PetscErrorCode DMPlexCreateSubmesh(DM, DMLabel, PetscInt, PetscBool, DM*);
218: PETSC_EXTERN PetscErrorCode DMPlexCreateHybridMesh(DM, DMLabel, DMLabel, DMLabel *, DMLabel *, DM *, DM *);
219: PETSC_EXTERN PetscErrorCode DMPlexGetSubpointMap(DM, DMLabel*);
220: PETSC_EXTERN PetscErrorCode DMPlexSetSubpointMap(DM, DMLabel);
221: PETSC_EXTERN PetscErrorCode DMPlexCreateSubpointIS(DM, IS *);
222: PETSC_EXTERN PetscErrorCode DMPlexGetSubpoint(DM, PetscInt, PetscInt *);
223: PETSC_EXTERN PetscErrorCode DMPlexGetAuxiliaryPoint(DM, DM, PetscInt, PetscInt *);

225: PETSC_EXTERN PetscErrorCode DMPlexLabelComplete(DM, DMLabel);
226: PETSC_EXTERN PetscErrorCode DMPlexLabelCohesiveComplete(DM, DMLabel, DMLabel, PetscBool, DM);
227: PETSC_EXTERN PetscErrorCode DMPlexLabelAddCells(DM, DMLabel);
228: PETSC_EXTERN PetscErrorCode DMPlexLabelClearCells(DM, DMLabel);

230: PETSC_EXTERN PetscErrorCode DMPlexGetRefinementLimit(DM, PetscReal *);
231: PETSC_EXTERN PetscErrorCode DMPlexSetRefinementLimit(DM, PetscReal);
232: PETSC_EXTERN PetscErrorCode DMPlexGetRefinementUniform(DM, PetscBool *);
233: PETSC_EXTERN PetscErrorCode DMPlexSetRefinementUniform(DM, PetscBool);
234: PETSC_EXTERN PetscErrorCode DMPlexGetRefinementFunction(DM, PetscErrorCode (**)(const PetscReal [], PetscReal *));
235: PETSC_EXTERN PetscErrorCode DMPlexSetRefinementFunction(DM, PetscErrorCode (*)(const PetscReal [], PetscReal *));
236: PETSC_EXTERN PetscErrorCode DMPlexCreateCoarsePointIS(DM, IS *);
237: PETSC_EXTERN PetscErrorCode DMPlexGetRegularRefinement(DM, PetscBool *);
238: PETSC_EXTERN PetscErrorCode DMPlexSetRegularRefinement(DM, PetscBool);
239: PETSC_EXTERN PetscErrorCode DMPlexRefineSimplexToTensor(DM, DM*);

241: /* Support for cell-vertex meshes */
242: PETSC_EXTERN PetscErrorCode DMPlexGetNumFaceVertices(DM, PetscInt, PetscInt, PetscInt *);
243: PETSC_EXTERN PetscErrorCode DMPlexGetOrientedFace(DM, PetscInt, PetscInt, const PetscInt [], PetscInt, PetscInt [], PetscInt [], PetscInt [], PetscBool *);

245: /* Geometry Support */
246: PETSC_EXTERN PetscErrorCode DMPlexGetMinRadius(DM, PetscReal *);
247: PETSC_EXTERN PetscErrorCode DMPlexSetMinRadius(DM, PetscReal);
248: PETSC_EXTERN PetscErrorCode DMPlexComputeProjection2Dto1D(PetscScalar[], PetscReal[]);
249: PETSC_EXTERN PetscErrorCode DMPlexComputeProjection3Dto1D(PetscScalar[], PetscReal[]);
250: PETSC_EXTERN PetscErrorCode DMPlexComputeProjection3Dto2D(PetscInt, PetscScalar[], PetscReal[]);

252: /* Point Location */
253: typedef struct _PetscGridHash *PetscGridHash;
254: PETSC_EXTERN PetscErrorCode PetscGridHashCreate(MPI_Comm, PetscInt, const PetscScalar[], PetscGridHash *);
255: PETSC_EXTERN PetscErrorCode PetscGridHashEnlarge(PetscGridHash, const PetscScalar []);
256: PETSC_EXTERN PetscErrorCode PetscGridHashSetGrid(PetscGridHash, const PetscInt [], const PetscReal []);
257: PETSC_EXTERN PetscErrorCode PetscGridHashGetEnclosingBox(PetscGridHash, PetscInt, const PetscScalar [], PetscInt [], PetscInt []);
258: PETSC_EXTERN PetscErrorCode PetscGridHashDestroy(PetscGridHash *);
259: PETSC_EXTERN PetscErrorCode DMPlexFindVertices(DM, PetscInt, const PetscReal [], PetscReal, PetscInt []);

261: /* FVM Support */
262: PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFVM(DM, PetscInt, PetscReal *, PetscReal [], PetscReal []);
263: PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFVM(DM, Vec *, Vec *);
264: PETSC_EXTERN PetscErrorCode DMPlexComputeGradientFVM(DM, PetscFV, Vec, Vec, DM *);
265: PETSC_EXTERN PetscErrorCode DMPlexGetDataFVM(DM, PetscFV, Vec *, Vec *, DM *);

267: /* FEM Support */
268: PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFEM(DM, Vec *);
269: PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValues(DM, PetscBool, Vec, PetscReal, Vec, Vec, Vec);
270: PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssential(DM, PetscReal, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt[],
271:                                                                 PetscErrorCode (*)(PetscInt, PetscReal, const PetscReal[], PetscInt, PetscScalar *, void *), void *, Vec );
272: PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssentialField(DM, PetscReal, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
273:                                                                      void (*)(PetscInt, PetscInt, PetscInt,
274:                                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
275:                                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
276:                                                                               PetscReal, const PetscReal[], PetscInt, const PetscScalar[],
277:                                                                               PetscScalar[]),
278:                                                                      void *, Vec);
279: PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesRiemann(DM, PetscReal, Vec, Vec, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
280:                                                               PetscErrorCode (*)(PetscReal,const PetscReal*,const PetscReal*,const PetscScalar*,PetscScalar*,void*), void *, Vec);
281: PETSC_EXTERN PetscErrorCode DMPlexMarkBoundaryFaces(DM, PetscInt, DMLabel);

283: PETSC_EXTERN PetscErrorCode DMPlexCreateSection(DM, DMLabel [], const PetscInt [], const PetscInt [], PetscInt, const PetscInt [], const IS [], const IS [], IS, PetscSection *);
284: PETSC_EXTERN PetscErrorCode DMPlexGetSubdomainSection(DM, PetscSection*);

286: PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryAffineFEM(DM, PetscInt, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
287: PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFEM(DM, PetscInt, PetscQuadrature, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
288: PETSC_EXTERN PetscErrorCode DMPlexCoordinatesToReference(DM, PetscInt, PetscInt, const PetscReal [], PetscReal[]);
289: PETSC_EXTERN PetscErrorCode DMPlexReferenceToCoordinates(DM, PetscInt, PetscInt, const PetscReal [], PetscReal[]);

291: PETSC_EXTERN PetscErrorCode DMPlexVecGetClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
292: PETSC_EXTERN PetscErrorCode DMPlexVecRestoreClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
293: PETSC_EXTERN PetscErrorCode DMPlexVecSetClosure(DM, PetscSection, Vec, PetscInt, const PetscScalar[], InsertMode);
294: PETSC_EXTERN PetscErrorCode DMPlexMatSetClosure(DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
295: PETSC_EXTERN PetscErrorCode DMPlexGetClosureIndices(DM, PetscSection, PetscSection, PetscInt, PetscInt *, PetscInt **, PetscInt *);
296: PETSC_EXTERN PetscErrorCode DMPlexRestoreClosureIndices(DM, PetscSection, PetscSection, PetscInt, PetscInt *, PetscInt **,PetscInt *);
297: PETSC_EXTERN PetscErrorCode DMPlexMatSetClosureRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
298: PETSC_EXTERN PetscErrorCode DMPlexMatGetClosureIndicesRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, PetscInt, PetscInt[], PetscInt[]);
299: PETSC_EXTERN PetscErrorCode DMPlexCreateClosureIndex(DM, PetscSection);
300: PETSC_EXTERN PetscErrorCode DMPlexSetClosurePermutationTensor(DM, PetscInt, PetscSection);

302: PETSC_EXTERN PetscErrorCode DMPlexConstructGhostCells(DM, const char [], PetscInt *, DM *);
303: PETSC_EXTERN PetscErrorCode DMPlexConstructCohesiveCells(DM, DMLabel, DMLabel, DM *);

305: PETSC_EXTERN PetscErrorCode DMPlexGetHybridBounds(DM, PetscInt *, PetscInt *, PetscInt *, PetscInt *);
306: PETSC_EXTERN PetscErrorCode DMPlexSetHybridBounds(DM, PetscInt, PetscInt, PetscInt, PetscInt);
307: PETSC_EXTERN PetscErrorCode DMPlexGetVTKCellHeight(DM, PetscInt *);
308: PETSC_EXTERN PetscErrorCode DMPlexSetVTKCellHeight(DM, PetscInt);
309: PETSC_EXTERN PetscErrorCode DMPlexVTKWriteAll(PetscObject, PetscViewer);

311: PETSC_EXTERN PetscErrorCode DMPlexGetCellFields(DM, IS, Vec, Vec, Vec, PetscScalar **, PetscScalar **, PetscScalar **);
312: PETSC_EXTERN PetscErrorCode DMPlexRestoreCellFields(DM, IS, Vec, Vec, Vec, PetscScalar **, PetscScalar **, PetscScalar **);
313: PETSC_EXTERN PetscErrorCode DMPlexGetFaceFields(DM, PetscInt, PetscInt, Vec, Vec, Vec, Vec, Vec, PetscInt *, PetscScalar **, PetscScalar **);
314: PETSC_EXTERN PetscErrorCode DMPlexRestoreFaceFields(DM, PetscInt, PetscInt, Vec, Vec, Vec, Vec, Vec, PetscInt *, PetscScalar **, PetscScalar **);
315: PETSC_EXTERN PetscErrorCode DMPlexGetFaceGeometry(DM, PetscInt, PetscInt, Vec, Vec, PetscInt *, PetscFVFaceGeom **, PetscReal **);
316: PETSC_EXTERN PetscErrorCode DMPlexRestoreFaceGeometry(DM, PetscInt, PetscInt, Vec, Vec, PetscInt *, PetscFVFaceGeom **, PetscReal **);

318: PETSC_EXTERN PetscErrorCode DMPlexGetScale(DM, PetscUnit, PetscReal *);
319: PETSC_EXTERN PetscErrorCode DMPlexSetScale(DM, PetscUnit, PetscReal);

321: typedef struct {
322:   DM    dm;
323:   Vec   u; /* The base vector for the Jacbobian action J(u) x */
324:   Mat   J; /* Preconditioner for testing */
325:   void *user;
326: } JacActionCtx;

328: PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesFEM(DM, Vec);
329: PETSC_EXTERN PetscErrorCode DMPlexSetMaxProjectionHeight(DM, PetscInt);
330: PETSC_EXTERN PetscErrorCode DMPlexGetMaxProjectionHeight(DM, PetscInt*);
331: PETSC_EXTERN PetscErrorCode DMPlexProjectFieldLocal(DM, Vec,
332:                                                     void (**)(PetscInt, PetscInt, PetscInt,
333:                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
334:                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
335:                                                               PetscReal, const PetscReal [], PetscScalar []), InsertMode, Vec);
336: PETSC_EXTERN PetscErrorCode DMPlexComputeL2DiffLocal(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, PetscReal *);
337: PETSC_EXTERN PetscErrorCode DMPlexComputeL2FieldDiff(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, PetscReal[]);
338: PETSC_EXTERN PetscErrorCode DMPlexComputeL2DiffVec(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, Vec);
339: PETSC_EXTERN PetscErrorCode DMPlexComputeCellwiseIntegralFEM(DM, Vec, Vec, void *);
340: PETSC_EXTERN PetscErrorCode DMPlexComputeIntegralFEM(DM, Vec, PetscScalar *, void *);
341: PETSC_EXTERN PetscErrorCode DMPlexComputeBdIntegral(DM, Vec, DMLabel, PetscInt, const PetscInt[],
342:                                                     void (*)(PetscInt, PetscInt, PetscInt,
343:                                                              const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
344:                                                              const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
345:                                                              PetscReal, const PetscReal[], const PetscReal[], PetscInt, const PetscScalar[], PetscScalar[]),
346:                                                     PetscScalar *, void *);
347: PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorNested(DM, DM, Mat, void *);
348: PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorGeneral(DM, DM, Mat, void *);
349: PETSC_EXTERN PetscErrorCode DMPlexComputeGradientClementInterpolant(DM, Vec, Vec);
350: PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorFEM(DM, DM, VecScatter *, void *);
351: PETSC_EXTERN PetscErrorCode DMPlexComputeMassMatrixNested(DM, DM, Mat, void *);
352: PETSC_EXTERN PetscErrorCode DMPlexComputeMassMatrixGeneral(DM, DM, Mat, void *);

354: PETSC_EXTERN PetscErrorCode DMPlexCreateRigidBody(DM, MatNullSpace *);
355: PETSC_EXTERN PetscErrorCode DMPlexCreateRigidBodies(DM, PetscInt, DMLabel, const PetscInt[], const PetscInt[], MatNullSpace *);

357: PETSC_EXTERN PetscErrorCode DMPlexSetSNESLocalFEM(DM,void *,void *,void *);
358: PETSC_EXTERN PetscErrorCode DMPlexSNESComputeBoundaryFEM(DM, Vec, void *);
359: PETSC_EXTERN PetscErrorCode DMPlexSNESComputeResidualFEM(DM, Vec, Vec, void *);
360: PETSC_EXTERN PetscErrorCode DMPlexSNESComputeJacobianFEM(DM, Vec, Mat, Mat, void *);
361: PETSC_EXTERN PetscErrorCode DMPlexComputeJacobianAction(DM, IS, PetscReal, PetscReal, Vec, Vec, Vec, Vec, void *);
362: PETSC_EXTERN PetscErrorCode DMPlexComputeBdResidualSingle(DM, PetscReal, DMLabel, PetscInt, const PetscInt[], PetscInt, Vec, Vec, Vec);
363: PETSC_EXTERN PetscErrorCode DMPlexComputeBdJacobianSingle(DM, PetscReal, DMLabel, PetscInt, const PetscInt[], PetscInt, Vec, Vec, PetscReal, Mat, Mat);

365: PETSC_EXTERN PetscErrorCode DMPlexTSComputeBoundary(DM, PetscReal, Vec, Vec, void *);
366: PETSC_EXTERN PetscErrorCode DMPlexTSComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
367: PETSC_EXTERN PetscErrorCode DMPlexTSComputeIFunctionFEM(DM, PetscReal, Vec, Vec, Vec, void *);
368: PETSC_EXTERN PetscErrorCode DMPlexTSComputeIJacobianFEM(DM, PetscReal, Vec, Vec, PetscReal, Mat, Mat, void *);

370: PETSC_EXTERN PetscErrorCode DMPlexComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
371: PETSC_EXTERN PetscErrorCode DMPlexReconstructGradientsFVM(DM,Vec,Vec);

373: /* anchors */
374: PETSC_EXTERN PetscErrorCode DMPlexGetAnchors(DM, PetscSection*, IS*);
375: PETSC_EXTERN PetscErrorCode DMPlexSetAnchors(DM, PetscSection, IS);
376: /* tree */
377: PETSC_EXTERN PetscErrorCode DMPlexSetReferenceTree(DM, DM);
378: PETSC_EXTERN PetscErrorCode DMPlexGetReferenceTree(DM, DM*);
379: PETSC_EXTERN PetscErrorCode DMPlexReferenceTreeGetChildSymmetry(DM, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt *, PetscInt *);
380: PETSC_EXTERN PetscErrorCode DMPlexCreateDefaultReferenceTree(MPI_Comm, PetscInt, PetscBool, DM*);
381: PETSC_EXTERN PetscErrorCode DMPlexSetTree(DM, PetscSection, PetscInt [], PetscInt []);
382: PETSC_EXTERN PetscErrorCode DMPlexGetTree(DM, PetscSection *, PetscInt *[], PetscInt *[], PetscSection *, PetscInt *[]);
383: PETSC_EXTERN PetscErrorCode DMPlexGetTreeParent(DM, PetscInt, PetscInt *, PetscInt *);
384: PETSC_EXTERN PetscErrorCode DMPlexGetTreeChildren(DM, PetscInt, PetscInt *, const PetscInt *[]);
385: PETSC_EXTERN PetscErrorCode DMPlexTreeRefineCell(DM, PetscInt, DM *);
386: PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorReferenceTree(DM, Mat *);
387: PETSC_EXTERN PetscErrorCode DMPlexTransferVecTree(DM,Vec,DM,Vec,PetscSF,PetscSF,PetscInt *,PetscInt *,PetscBool,PetscReal);

389: /* natural order */
390: PETSC_EXTERN PetscErrorCode DMPlexCreateGlobalToNaturalSF(DM, PetscSection, PetscSF, PetscSF *);
391: PETSC_EXTERN PetscErrorCode DMPlexSetGlobalToNaturalSF(DM, PetscSF);
392: PETSC_EXTERN PetscErrorCode DMPlexGetGlobalToNaturalSF(DM, PetscSF *);
393: PETSC_EXTERN PetscErrorCode DMPlexGlobalToNaturalBegin(DM, Vec, Vec);
394: PETSC_EXTERN PetscErrorCode DMPlexGlobalToNaturalEnd(DM, Vec, Vec);
395: PETSC_EXTERN PetscErrorCode DMPlexNaturalToGlobalBegin(DM, Vec, Vec);
396: PETSC_EXTERN PetscErrorCode DMPlexNaturalToGlobalEnd(DM, Vec, Vec);

398: /* mesh adaptation */
399: PETSC_EXTERN PetscErrorCode DMPlexAdapt(DM, Vec, const char [], DM *);

401: PETSC_EXTERN PetscErrorCode DMPlexGlobalToLocalBasis(DM, Vec);
402: PETSC_EXTERN PetscErrorCode DMPlexLocalToGlobalBasis(DM, Vec);
403: PETSC_EXTERN PetscErrorCode DMPlexCreateBasisRotation(DM, PetscReal, PetscReal, PetscReal);
404: #endif