xref: /petsc/include/petscdmplex.h (revision 7d282ae044b3c3a4da9af0ebb02c192250bc1e8b) 
1552f7358SJed Brown /*
2552f7358SJed Brown   DMPlex, for parallel unstructured distributed mesh problems.
3552f7358SJed Brown */
4552f7358SJed Brown #if !defined(__PETSCDMPLEX_H)
5552f7358SJed Brown #define __PETSCDMPLEX_H
6552f7358SJed Brown 
7552f7358SJed Brown #include <petscdm.h>
8a0845e3aSMatthew G. Knepley #include <petscdt.h>
9a0845e3aSMatthew G. Knepley #include <petscfe.h>
100bacfa0aSMatthew G. Knepley #include <petscfv.h>
11799f573fSMatthew G. Knepley #include <petscsftypes.h>
12552f7358SJed Brown 
1377623264SMatthew G. Knepley PETSC_EXTERN PetscClassId PETSCPARTITIONER_CLASSID;
1477623264SMatthew G. Knepley 
1577623264SMatthew G. Knepley /*J
1677623264SMatthew G. Knepley   PetscPartitionerType - String with the name of a PETSc graph partitioner
1777623264SMatthew G. Knepley 
1877623264SMatthew G. Knepley   Level: beginner
1977623264SMatthew G. Knepley 
2077623264SMatthew G. Knepley .seealso: PetscPartitionerSetType(), PetscPartitioner
2177623264SMatthew G. Knepley J*/
2277623264SMatthew G. Knepley typedef const char *PetscPartitionerType;
2377623264SMatthew G. Knepley #define PETSCPARTITIONERCHACO    "chaco"
2477623264SMatthew G. Knepley #define PETSCPARTITIONERPARMETIS "parmetis"
2577623264SMatthew G. Knepley #define PETSCPARTITIONERSHELL    "shell"
2677623264SMatthew G. Knepley 
2777623264SMatthew G. Knepley PETSC_EXTERN PetscFunctionList PetscPartitionerList;
2877623264SMatthew G. Knepley PETSC_EXTERN PetscBool         PetscPartitionerRegisterAllCalled;
2977623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerCreate(MPI_Comm, PetscPartitioner *);
3077623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerDestroy(PetscPartitioner *);
3177623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerSetType(PetscPartitioner, PetscPartitionerType);
3277623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerGetType(PetscPartitioner, PetscPartitionerType *);
3377623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerSetUp(PetscPartitioner);
3477623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerSetFromOptions(PetscPartitioner);
3577623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerViewFromOptions(PetscPartitioner, const char[], const char[]);
3677623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerView(PetscPartitioner, PetscViewer);
3777623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerRegister(const char [], PetscErrorCode (*)(PetscPartitioner));
3877623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerRegisterAll(void);
3977623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerRegisterDestroy(void);
4077623264SMatthew G. Knepley 
4177623264SMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerPartition(PetscPartitioner, DM, PetscBool, PetscSection, IS *, PetscSection, IS *);
4277623264SMatthew G. Knepley 
435680f57bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscPartitionerShellSetPartition(PetscPartitioner, PetscInt, const PetscInt[], const PetscInt[]);
4477623264SMatthew G. Knepley 
45552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreate(MPI_Comm, DM*);
4627c04023SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCohesiveSubmesh(DM, PetscBool, const char [], PetscInt, DM *);
470fde5641SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellList(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const double[], DM*);
4806bbee04SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFromDAG(DM, PetscInt, const PetscInt [], const PetscInt [], const PetscInt [], const PetscInt [], const PetscScalar []);
498415267dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceCell(MPI_Comm, PetscInt, PetscBool, DM*);
50552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetChart(DM, PetscInt *, PetscInt *);
51552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetChart(DM, PetscInt, PetscInt);
52552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeSize(DM, PetscInt, PetscInt *);
53552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetConeSize(DM, PetscInt, PetscInt);
54feb68dd6SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexAddConeSize(DM, PetscInt, PetscInt);
55552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetCone(DM, PetscInt, const PetscInt *[]);
56552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetCone(DM, PetscInt, const PetscInt[]);
579f074e33SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertCone(DM, PetscInt, PetscInt, PetscInt);
5877c88f5bSMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertConeOrientation(DM, PetscInt, PetscInt, PetscInt);
59552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientation(DM, PetscInt, const PetscInt *[]);
60552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetConeOrientation(DM, PetscInt, const PetscInt[]);
61552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetSupportSize(DM, PetscInt, PetscInt *);
62552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetSupportSize(DM, PetscInt, PetscInt);
63552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetSupport(DM, PetscInt, const PetscInt *[]);
64552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetSupport(DM, PetscInt, const PetscInt[]);
65552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexInsertSupport(DM, PetscInt, PetscInt, PetscInt);
66552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeSection(DM, PetscSection *);
678cb4d582SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetSupportSection(DM, PetscSection *);
68552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetCones(DM, PetscInt *[]);
69552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientations(DM, PetscInt *[]);
70552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetMaxSizes(DM, PetscInt *, PetscInt *);
71552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSymmetrize(DM);
72552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexStratify(DM);
734e3744c5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexEqual(DM,DM,PetscBool*);
74d27a0f52SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexOrient(DM);
7575d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInterpolate(DM, DM *);
764e3744c5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexUninterpolate(DM, DM *);
7775d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLoad(PetscViewer, DM);
78cb1e1211SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexPreallocateOperator(DM, PetscInt, PetscSection, PetscSection, PetscInt[], PetscInt[], PetscInt[], PetscInt[], Mat, PetscBool);
79552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetPointLocal(DM,PetscInt,PetscInt*,PetscInt*);
80552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexPointLocalRef(DM,PetscInt,PetscScalar*,void*);
81552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexPointLocalRead(DM,PetscInt,const PetscScalar*,const void*);
82552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobal(DM,PetscInt,PetscInt*,PetscInt*);
83552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRef(DM,PetscInt,PetscScalar*,void*);
84552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRead(DM,PetscInt,const PetscScalar*,const void*);
85552f7358SJed Brown 
86552f7358SJed Brown /*S
87552f7358SJed Brown   DMLabel - Object which encapsulates a subset of the mesh from this DM
88552f7358SJed Brown 
89552f7358SJed Brown   Level: developer
90552f7358SJed Brown 
91552f7358SJed Brown   Concepts: grids, grid refinement
92552f7358SJed Brown 
93552f7358SJed Brown .seealso:  DM, DMPlexCreate(), DMPlexCreateLabel()
94552f7358SJed Brown S*/
95552f7358SJed Brown typedef struct _n_DMLabel *DMLabel;
96552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelCreate(const char [], DMLabel *);
97552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelView(DMLabel, PetscViewer);
98552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelDestroy(DMLabel *);
99f807ecf7SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMLabelDuplicate(DMLabel, DMLabel *);
10085de2ee3SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMLabelGetName(DMLabel, const char **);
101552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelGetValue(DMLabel, PetscInt, PetscInt *);
102552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelSetValue(DMLabel, PetscInt, PetscInt);
103552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelClearValue(DMLabel, PetscInt, PetscInt);
104552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelGetNumValues(DMLabel, PetscInt *);
105a9e27379SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMLabelGetStratumBounds(DMLabel, PetscInt, PetscInt *, PetscInt *);
106552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelGetValueIS(DMLabel, IS *);
1070225b034SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMLabelStratumHasPoint(DMLabel, PetscInt, PetscInt, PetscBool *);
108552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelGetStratumSize(DMLabel, PetscInt, PetscInt *);
109552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelGetStratumIS(DMLabel, PetscInt, IS *);
110552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMLabelClearStratum(DMLabel, PetscInt);
11191d07b70SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMLabelCreateIndex(DMLabel, PetscInt, PetscInt);
11291d07b70SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMLabelDestroyIndex(DMLabel);
11346b85170SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMLabelHasValue(DMLabel, PetscInt, PetscBool *);
11491d07b70SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMLabelHasPoint(DMLabel, PetscInt, PetscBool *);
115ae932cb5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMLabelFilter(DMLabel, PetscInt, PetscInt);
116f186335cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMLabelPermute(DMLabel, IS, DMLabel *);
1172eb1fa14SMichael Lange PETSC_EXTERN PetscErrorCode DMLabelDistribute(DMLabel, PetscSF, DMLabel *);
118552f7358SJed Brown 
119552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateLabel(DM, const char []);
120552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetLabelValue(DM, const char[], PetscInt, PetscInt *);
121552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetLabelValue(DM, const char[], PetscInt, PetscInt);
122552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexClearLabelValue(DM, const char[], PetscInt, PetscInt);
123552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetLabelSize(DM, const char[], PetscInt *);
124552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetLabelIdIS(DM, const char[], IS *);
125552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetStratumSize(DM, const char [], PetscInt, PetscInt *);
126552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetStratumIS(DM, const char [], PetscInt, IS *);
127552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexClearLabelStratum(DM, const char[], PetscInt);
128a85475f2SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetLabelOutput(DM, const char[], PetscBool *);
129a85475f2SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetLabelOutput(DM, const char[], PetscBool);
130552f7358SJed Brown PETSC_EXTERN PetscErrorCode PetscSectionCreateGlobalSectionLabel(PetscSection, PetscSF, PetscBool, DMLabel, PetscInt, PetscSection *);
131552f7358SJed Brown 
132552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetNumLabels(DM, PetscInt *);
133552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetLabelName(DM, PetscInt, const char **);
134552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexHasLabel(DM, const char [], PetscBool *);
135552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetLabel(DM, const char *, DMLabel *);
136a85475f2SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetLabelByNum(DM, PetscInt, DMLabel *);
137552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexAddLabel(DM, DMLabel);
138552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRemoveLabel(DM, const char [], DMLabel *);
139552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetCellNumbering(DM, IS *);
140552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetVertexNumbering(DM, IS *);
141ef48cebcSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreatePointNumbering(DM, IS *);
142552f7358SJed Brown 
14375d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetDepth(DM, PetscInt *);
1443ded2ed9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetDepthLabel(DM, DMLabel *);
14575d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetDepthStratum(DM, PetscInt, PetscInt *, PetscInt *);
14675d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetHeightStratum(DM, PetscInt, PetscInt *, PetscInt *);
14775d3a19aSMatthew G. Knepley 
14875d3a19aSMatthew G. Knepley /* Topological Operations */
149552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
150552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetFullMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
151552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRestoreMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
152552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
153552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetFullJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
154552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRestoreJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
155552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
156552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRestoreTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
157552f7358SJed Brown 
15875d3a19aSMatthew G. Knepley /* Mesh Generation */
159552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGenerate(DM, const char [], PetscBool , DM *);
160930319cbSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCopyCoordinates(DM, DM);
1615c386225SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCopyLabels(DM, DM);
1621df5d5c5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateDoublet(MPI_Comm, PetscInt, PetscBool, PetscBool, PetscBool, PetscReal, DM *);
16326492d91SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSquareBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
164552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateCubeBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
1651a77d578SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSquareMesh(DM, const PetscReal [], const PetscReal [], const PetscInt [], DMBoundaryType, DMBoundaryType);
166552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateBoxMesh(MPI_Comm, PetscInt, PetscBool, DM *);
167bff4a2f0SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateHexBoxMesh(MPI_Comm, PetscInt, const PetscInt[], DMBoundaryType, DMBoundaryType, DMBoundaryType, DM *);
168552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateConeSection(DM, PetscSection *);
169459e96c1SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInvertCell(PetscInt, PetscInt, int []);
170d49fcaecSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLocalizeCoordinates(DM);
171ca8062c8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCheckSymmetry(DM);
17258723a97SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCheckSkeleton(DM, PetscBool, PetscInt);
1739bf0dad6SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCheckFaces(DM, PetscBool, PetscInt);
17475d3a19aSMatthew G. Knepley 
175d9deefdfSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTriangleSetOptions(DM, const char *);
176776fd405SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTetgenSetOptions(DM, const char *);
177d9deefdfSMatthew G. Knepley 
17875d3a19aSMatthew G. Knepley /* Mesh Partitioning and Distribution */
179552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateNeighborCSR(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **);
1805680f57bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetPartitioner(DM, PetscPartitioner *);
18171bb2955SLawrence Mitchell PETSC_EXTERN PetscErrorCode DMPlexSetPartitioner(DM, PetscPartitioner);
182ac17c9edSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreatePartition(DM, const char[], PetscInt, PetscBool, PetscSection *, IS *, PetscSection *, IS *);
183552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreatePartitionClosure(DM, PetscSection, IS, PetscSection *, IS *);
18480cf41d5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexDistribute(DM, PetscInt, PetscSF*, DM*);
185a157612eSMichael Lange PETSC_EXTERN PetscErrorCode DMPlexDistributeOverlap(DM, PetscInt, ISLocalToGlobalMapping, PetscSF *, DM *);
186552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexDistributeField(DM,PetscSF,PetscSection,Vec,PetscSection,Vec);
187b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexDistributeFieldIS(DM, PetscSF, PetscSection, IS, PetscSection, IS *);
188552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexDistributeData(DM,PetscSF,PetscSection,MPI_Datatype,void*,PetscSection,void**);
18970034214SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseCone(DM,PetscBool);
19070034214SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseCone(DM,PetscBool*);
19170034214SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseClosure(DM,PetscBool);
19270034214SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseClosure(DM,PetscBool*);
193a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseAnchors(DM,PetscBool);
194a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseAnchors(DM,PetscBool*);
19570034214SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetAdjacency(DM, PetscInt, PetscInt *, PetscInt *[]);
19675d3a19aSMatthew G. Knepley 
197f5cedc29SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetOrdering(DM, MatOrderingType, IS *);
198f5cedc29SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPermute(DM, IS, DM *);
199f5cedc29SMatthew G. Knepley 
200b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateProcessSF(DM, PetscSF, IS *, PetscSF *);
201b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateTwoSidedProcessSF(DM, PetscSF, PetscSection, IS, PetscSection, IS, IS *, PetscSF *);
202b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexDistributeOwnership(DM, PetscSection, IS *, PetscSection, IS *);
203e540f424SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexCreateOverlap(DM, PetscSection, IS, PetscSection, IS, PetscSF *);
20446f9b1c3SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexCreateOverlapMigrationSF(DM, PetscSF, PetscSF *);
205b0a623aaSMatthew G. Knepley 
20675d3a19aSMatthew G. Knepley /* Submesh Support */
2073cf72582SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSubmesh(DM, DMLabel, PetscInt, DM*);
2083cf72582SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateHybridMesh(DM, DMLabel, DMLabel *, DM *);
209552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetSubpointMap(DM, DMLabel*);
210552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetSubpointMap(DM, DMLabel);
211552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateSubpointIS(DM, IS *);
212552f7358SJed Brown 
21309f723d9SJed Brown PETSC_EXTERN PetscErrorCode DMPlexMarkBoundaryFaces(DM, DMLabel);
2142be2b188SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelComplete(DM, DMLabel);
2150f66a230SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelCohesiveComplete(DM, DMLabel, DMLabel, PetscBool, DM);
2166cf0e42fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelAddCells(DM, DMLabel);
217552f7358SJed Brown 
21875d3a19aSMatthew G. Knepley /* Mesh Refinement */
21975d3a19aSMatthew G. Knepley typedef PetscInt CellRefiner;
22075d3a19aSMatthew G. Knepley 
22175d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetRefinementLimit(DM, PetscReal *);
22275d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetRefinementLimit(DM, PetscReal);
22375d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetRefinementUniform(DM, PetscBool *);
22475d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetRefinementUniform(DM, PetscBool);
2253913d7c8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetCoarseDM(DM, DM *);
2263913d7c8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetCoarseDM(DM, DM);
2272389894bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCoarsePointIS(DM, IS *);
228552f7358SJed Brown 
22918ad9376SMatthew G. Knepley /* Support for cell-vertex meshes */
23018ad9376SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetNumFaceVertices(DM, PetscInt, PetscInt, PetscInt *);
231f5d69827SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetOrientedFace(DM, PetscInt, PetscInt, const PetscInt [], PetscInt, PetscInt [], PetscInt [], PetscInt [], PetscBool *);
23218ad9376SMatthew G. Knepley 
2330f0bf202SMatthew G. Knepley /* Geometry Support */
2340f0bf202SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetMinRadius(DM, PetscReal *);
2350f0bf202SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetMinRadius(DM, PetscReal);
2360f0bf202SMatthew G. Knepley 
237834e62ceSMatthew G. Knepley /* FVM Support */
238cc08537eSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFVM(DM, PetscInt, PetscReal *, PetscReal [], PetscReal []);
2390f0bf202SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFVM(DM, Vec *, Vec *);
240856ac710SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeGradientFVM(DM, PetscFV, Vec, Vec, DM *);
241834e62ceSMatthew G. Knepley 
242552f7358SJed Brown /* FEM Support */
243d7ddef95SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValues(DM, Vec, PetscReal, Vec, Vec, Vec);
244d7ddef95SMatthew G. Knepley 
245f8f126e8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSection(DM, PetscInt, PetscInt,const PetscInt [],const PetscInt [], PetscInt,const PetscInt [],const IS [], IS, PetscSection *);
24675d3a19aSMatthew G. Knepley 
2478e0841e0SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryAffineFEM(DM, PetscInt, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
2488e0841e0SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFEM(DM, PetscInt, PetscFE, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
249c0d900a5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFEM(DM, Vec *);
2507c1f9639SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexVecGetClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
2517c1f9639SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexVecRestoreClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
252552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexVecSetClosure(DM, PetscSection, Vec, PetscInt, const PetscScalar[], InsertMode);
2537c1f9639SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexMatSetClosure(DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
2540405ed22SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMatSetClosureRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
2557c927364SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMatGetClosureIndicesRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, PetscInt, PetscInt[], PetscInt[]);
256ee72d991SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateClosureIndex(DM, PetscSection);
257552f7358SJed Brown 
258ca522641SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFromFile(MPI_Comm, const char[], PetscBool, DM *);
259552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateExodus(MPI_Comm, PetscInt, PetscBool, DM *);
26033751fbdSMichael Lange PETSC_EXTERN PetscErrorCode DMPlexCreateExodusFromFile(MPI_Comm, const char [], PetscBool, DM *);
2615bb3eff3SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCGNS(MPI_Comm, PetscInt, PetscBool, DM *);
26244cd5272SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexCreateCGNSFromFile(MPI_Comm, const char[], PetscBool, DM *);
263331830f3SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateGmsh(MPI_Comm, PetscViewer, PetscBool, DM *);
264*7d282ae0SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexCreateGmshFromFile(MPI_Comm, const char [], PetscBool, DM *);
265552f7358SJed Brown 
266552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexConstructGhostCells(DM, const char [], PetscInt *, DM *);
267a89082eeSMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexConstructCohesiveCells(DM, DMLabel, DM *);
268552f7358SJed Brown 
269770b213bSMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexGetHybridBounds(DM, PetscInt *, PetscInt *, PetscInt *, PetscInt *);
270770b213bSMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexSetHybridBounds(DM, PetscInt, PetscInt, PetscInt, PetscInt);
271552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetVTKCellHeight(DM, PetscInt *);
272552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetVTKCellHeight(DM, PetscInt);
273552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexVTKWriteAll(PetscObject, PetscViewer);
274552f7358SJed Brown 
275552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetScale(DM, PetscUnit, PetscReal *);
276552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetScale(DM, PetscUnit, PetscReal);
277552f7358SJed Brown 
2786c73c22cSMatthew G. Knepley typedef struct _n_Boundary *DMBoundary;
27963d5297fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexAddBoundary(DM, PetscBool, const char[], const char[], PetscInt, void (*)(), PetscInt, const PetscInt *, void *);
2806c73c22cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetNumBoundary(DM, PetscInt *);
28163d5297fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetBoundary(DM, PetscInt, PetscBool *, const char **, const char **, PetscInt *, void (**)(), PetscInt *, const PetscInt **, void **);
2820225b034SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexIsBoundaryPoint(DM, PetscInt, PetscBool *);
2838e136ac0SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCopyBoundary(DM, DM);
2846c73c22cSMatthew G. Knepley 
285552f7358SJed Brown typedef struct {
286552f7358SJed Brown   DM    dm;
287552f7358SJed Brown   Vec   u; /* The base vector for the Jacbobian action J(u) x */
288552f7358SJed Brown   Mat   J; /* Preconditioner for testing */
289552f7358SJed Brown   void *user;
290552f7358SJed Brown } JacActionCtx;
291552f7358SJed Brown 
2923351dd3dSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesFEM(DM, Vec);
293b29cfa1cSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetMaxProjectionHeight(DM, PetscInt);
294b29cfa1cSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetMaxProjectionHeight(DM, PetscInt*);
2958040c1f3SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexProjectFunction(DM, void (**)(const PetscReal [], PetscScalar *, void *), void **, InsertMode, Vec);
2960f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexProjectFunctionLocal(DM, void (**)(const PetscReal [], PetscScalar *, void *), void **, InsertMode, Vec);
2971ee2f23fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexProjectFieldLocal(DM, Vec, void (**)(const PetscScalar[], const PetscScalar[], const PetscScalar[], const PetscScalar[], const PetscScalar[], const PetscScalar[], const PetscReal [], PetscScalar []), InsertMode, Vec);
2980f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeL2Diff(DM, void (**)(const PetscReal [], PetscScalar *, void *), void **, Vec, PetscReal *);
2990f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeL2GradientDiff(DM, void (**)(const PetscReal [], const PetscReal [], PetscScalar *, void *), void **, Vec, const PetscReal [], PetscReal *);
3000f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeL2FieldDiff(DM, void (**)(const PetscReal [], PetscScalar *, void *), void **, Vec, PetscReal[]);
3010f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeIntegralFEM(DM, Vec, PetscReal *, void *);
302bceba477SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorFEM(DM, DM, Mat, void *);
3037c927364SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorFEM(DM, DM, VecScatter *, void *);
3041c41a8caSMatthew G. Knepley 
3050f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSNESComputeResidualFEM(DM, Vec, Vec, void *);
3060f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSNESComputeJacobianFEM(DM, Vec, Mat, Mat,void *);
3070f2d7e86SMatthew G. Knepley 
308924a1b8fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTSComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
309adbe6fbbSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTSComputeIFunctionFEM(DM, PetscReal, Vec, Vec, Vec, void *);
310adbe6fbbSMatthew G. Knepley 
3111c41a8caSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
312a68b90caSToby Isaac 
313a17985deSToby Isaac /* anchors */
314a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetAnchors(DM, PetscSection*, IS*);
315a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetAnchors(DM, PetscSection, IS);
316d6a7ad0dSToby Isaac /* tree */
317d6a7ad0dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetReferenceTree(DM, DM);
318d6a7ad0dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetReferenceTree(DM, DM*);
319dcbd3bf7SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexReferenceTreeGetChildSymmetry(DM, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt *, PetscInt *);
320da43764aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexCreateDefaultReferenceTree(MPI_Comm, PetscInt, PetscBool, DM*);
321b2f41788SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetTree(DM, PetscSection, PetscInt [], PetscInt []);
322b2f41788SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetTree(DM, PetscSection *, PetscInt *[], PetscInt *[], PetscSection *, PetscInt *[]);
323d961a43aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetTreeParent(DM, PetscInt, PetscInt *, PetscInt *);
324d961a43aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetTreeChildren(DM, PetscInt, PetscInt *, const PetscInt *[]);
3256f5f1567SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexTreeRefineCell(DM, PetscInt, DM *);
326552f7358SJed Brown #endif
327