xref: /petsc/include/petscdmplex.h (revision b08ad5debb040888c9dfea8f44cf65b3877fb5b3)
1552f7358SJed Brown /*
2552f7358SJed Brown   DMPlex, for parallel unstructured distributed mesh problems.
3552f7358SJed Brown */
426bd1501SBarry Smith #if !defined(PETSCDMPLEX_H)
526bd1501SBarry Smith #define PETSCDMPLEX_H
6552f7358SJed Brown 
7224ef0b1SMatthew Knepley #include <petscsection.h>
8abe9303eSLisandro Dalcin #include <petscpartitioner.h>
9552f7358SJed Brown #include <petscdm.h>
1086fe8405SMatthew G. Knepley #include <petscdmplextypes.h>
11a0845e3aSMatthew G. Knepley #include <petscdt.h>
12a0845e3aSMatthew G. Knepley #include <petscfe.h>
130bacfa0aSMatthew G. Knepley #include <petscfv.h>
14799f573fSMatthew G. Knepley #include <petscsftypes.h>
15c330f8ffSToby Isaac #include <petscdmfield.h>
16ea8e1828Sksagiyam #include <petscviewer.h>
17552f7358SJed Brown 
183c41b853SStefano Zampini PETSC_EXTERN PetscErrorCode PetscPartitionerDMPlexPartition(PetscPartitioner, DM, PetscSection, PetscSection, IS *);
1977623264SMatthew G. Knepley 
205e488331SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexBuildFromCellList(DM, PetscInt, PetscInt, PetscInt, const PetscInt[]);
2125b6865aSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexBuildFromCellListParallel(DM, PetscInt, PetscInt, PetscInt, PetscInt, const PetscInt[], PetscSF *);
221edcf0b2SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexBuildCoordinatesFromCellList(DM, PetscInt, const PetscReal[]);
231edcf0b2SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexBuildCoordinatesFromCellListParallel(DM, PetscInt, PetscSF, const PetscReal[]);
24b09969d6SVaclav Hapla 
25552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreate(MPI_Comm, DM*);
2627c04023SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCohesiveSubmesh(DM, PetscBool, const char [], PetscInt, DM *);
27a4a685f2SJacob Faibussowitsch PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellListPetsc(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const PetscInt[], PetscInt, const PetscReal[], DM*);
28a4a685f2SJacob Faibussowitsch PETSC_EXTERN PETSC_DEPRECATED_FUNCTION("Use DMPlexCreateFromCellListPetsc() (since version 3.14)") PetscErrorCode DMPlexCreateFromCellList(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const double[], DM*);
2925b6865aSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCreateFromCellListParallelPetsc(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const PetscInt[], PetscInt, const PetscReal[], PetscSF *, DM *);
30a4a685f2SJacob Faibussowitsch PETSC_EXTERN PETSC_DEPRECATED_FUNCTION("Use DMPlexCreateFromCellListParallelPetsc() (since version 3.14)") PetscErrorCode DMPlexCreateFromCellListParallel(MPI_Comm, PetscInt, PetscInt, PetscInt, PetscInt, PetscBool, const int[], PetscInt, const PetscReal[], PetscSF *, DM *);
3106bbee04SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFromDAG(DM, PetscInt, const PetscInt [], const PetscInt [], const PetscInt [], const PetscInt [], const PetscScalar []);
328415267dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceCell(MPI_Comm, PetscInt, PetscBool, DM*);
33412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceCellByType(MPI_Comm, DMPolytopeType, DM *);
34a9074c1eSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetOptionsPrefix(DM, const char []);
35552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetChart(DM, PetscInt *, PetscInt *);
36552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetChart(DM, PetscInt, PetscInt);
37552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeSize(DM, PetscInt, PetscInt *);
38552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetConeSize(DM, PetscInt, PetscInt);
39feb68dd6SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexAddConeSize(DM, PetscInt, PetscInt);
40552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetCone(DM, PetscInt, const PetscInt *[]);
410ce7577fSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexGetConeTuple(DM, IS, PetscSection *, IS *);
42af9eab45SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexGetConeRecursive(DM, IS, PetscInt *, IS *[], PetscSection *[]);
43af9eab45SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexRestoreConeRecursive(DM, IS, PetscInt *, IS *[], PetscSection *[]);
44af9eab45SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexGetConeRecursiveVertices(DM, IS, IS *);
45552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetCone(DM, PetscInt, const PetscInt[]);
469f074e33SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertCone(DM, PetscInt, PetscInt, PetscInt);
4777c88f5bSMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertConeOrientation(DM, PetscInt, PetscInt, PetscInt);
48552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientation(DM, PetscInt, const PetscInt *[]);
49552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetConeOrientation(DM, PetscInt, const PetscInt[]);
50552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetSupportSize(DM, PetscInt, PetscInt *);
51552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetSupportSize(DM, PetscInt, PetscInt);
52552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetSupport(DM, PetscInt, const PetscInt *[]);
53552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetSupport(DM, PetscInt, const PetscInt[]);
54552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexInsertSupport(DM, PetscInt, PetscInt, PetscInt);
55552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeSection(DM, PetscSection *);
568cb4d582SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetSupportSection(DM, PetscSection *);
57552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetCones(DM, PetscInt *[]);
58552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetConeOrientations(DM, PetscInt *[]);
59552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetMaxSizes(DM, PetscInt *, PetscInt *);
60552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSymmetrize(DM);
61552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexStratify(DM);
624e3744c5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexEqual(DM,DM,PetscBool*);
63cb11e54dSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexReverseCell(DM, PetscInt);
64fa01033eSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexOrientCell(DM,PetscInt,PetscInt,const PetscInt[]);
6527d0e99aSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCompareOrientations(DM, PetscInt, PetscInt, const PetscInt [], PetscInt *, PetscBool *);
66d27a0f52SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexOrient(DM);
67e101f074SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPreallocateOperator(DM, PetscInt, PetscInt[], PetscInt[], PetscInt[], PetscInt[], Mat, PetscBool);
68552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetPointLocal(DM,PetscInt,PetscInt*,PetscInt*);
69081a2d76SSatish Balay PETSC_EXTERN PetscErrorCode DMPlexPointLocalRead(DM,PetscInt,const PetscScalar*,void*);
70a89cf0ddSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPointLocalRef(DM,PetscInt,PetscScalar*,void*);
71a89cf0ddSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetPointLocalField(DM,PetscInt,PetscInt,PetscInt*,PetscInt*);
72a89cf0ddSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPointLocalFieldRef(DM,PetscInt,PetscInt,PetscScalar*,void*);
73081a2d76SSatish Balay PETSC_EXTERN PetscErrorCode DMPlexPointLocalFieldRead(DM,PetscInt,PetscInt,const PetscScalar*,void*);
74552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobal(DM,PetscInt,PetscInt*,PetscInt*);
75552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRead(DM,PetscInt,const PetscScalar*,const void*);
76a89cf0ddSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPointGlobalRef(DM,PetscInt,PetscScalar*,void*);
77a89cf0ddSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetPointGlobalField(DM,PetscInt,PetscInt,PetscInt*,PetscInt*);
78a89cf0ddSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPointGlobalFieldRef(DM,PetscInt,PetscInt,PetscScalar*,void*);
79081a2d76SSatish Balay PETSC_EXTERN PetscErrorCode DMPlexPointGlobalFieldRead(DM,PetscInt,PetscInt,const PetscScalar*, void*);
80552f7358SJed Brown 
81a7748839SVaclav Hapla /* Topological interpolation */
82a7748839SVaclav Hapla PETSC_EXTERN const char * const DMPlexInterpolatedFlags[];
839ade3219SVaclav Hapla /*E
849ade3219SVaclav Hapla    DMPlexInterpolatedFlag - Describes level of topological interpolatedness.
859ade3219SVaclav Hapla      It is a local or collective property depending on whether it is returned by DMPlexIsInterpolated() or DMPlexIsInterpolatedCollective().
869ade3219SVaclav Hapla 
879ade3219SVaclav Hapla $  DMPLEX_INTERPOLATED_INVALID - Uninitialized value (internal use only; never returned by DMPlexIsInterpolated() or DMPlexIsInterpolatedCollective())
889ade3219SVaclav Hapla $  DMPLEX_INTERPOLATED_NONE    - Mesh is not interpolated
899ade3219SVaclav Hapla $  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)
909ade3219SVaclav Hapla $  DMPLEX_INTERPOLATED_MIXED   - Can be returned only by DMPlexIsInterpolatedCollective(), meaning that DMPlexIsInterpolated() returns different interpolatedness on different ranks
919ade3219SVaclav Hapla $  DMPLEX_INTERPOLATED_FULL    - Mesh is fully interpolated
929ade3219SVaclav Hapla 
939ade3219SVaclav Hapla    Level: intermediate
949ade3219SVaclav Hapla 
959ade3219SVaclav Hapla    Developer Note:
969ade3219SVaclav Hapla    Any additions/changes here MUST also be made in include/petsc/finclude/petscdmplex.h and src/dm/f90-mod/petscdmplex.h
979ade3219SVaclav Hapla 
989ade3219SVaclav Hapla .seealso: DMPlexIsInterpolated(), DMPlexIsInterpolatedCollective(), DMPlexInterpolate(), DMPlexUninterpolate()
999ade3219SVaclav Hapla E*/
100a7748839SVaclav Hapla typedef enum {
1017d0f5628SVaclav Hapla   DMPLEX_INTERPOLATED_INVALID = -1,
102a7748839SVaclav Hapla   DMPLEX_INTERPOLATED_NONE = 0,
103a7748839SVaclav Hapla   DMPLEX_INTERPOLATED_PARTIAL,
104a7748839SVaclav Hapla   DMPLEX_INTERPOLATED_MIXED,
105a7748839SVaclav Hapla   DMPLEX_INTERPOLATED_FULL
106a7748839SVaclav Hapla } DMPlexInterpolatedFlag;
107a7748839SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexInterpolate(DM, DM *);
108a7748839SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexUninterpolate(DM, DM *);
109a7748839SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexInterpolatePointSF(DM, PetscSF);
110a7748839SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexIsInterpolated(DM, DMPlexInterpolatedFlag *);
111a7748839SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexIsInterpolatedCollective(DM, DMPlexInterpolatedFlag *);
112a7748839SVaclav Hapla 
1138b51c812SSatish Balay PETSC_EXTERN PetscErrorCode DMPlexFilter(DM, DMLabel, PetscInt, DM *);
114552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetCellNumbering(DM, IS *);
115552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetVertexNumbering(DM, IS *);
116ef48cebcSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreatePointNumbering(DM, IS *);
11708a22f4bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateRankField(DM, Vec *);
11818e14f0cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateLabelField(DM, DMLabel, Vec *);
119552f7358SJed Brown 
12075d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetDepth(DM, PetscInt *);
1213ded2ed9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetDepthLabel(DM, DMLabel *);
12275d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetDepthStratum(DM, PetscInt, PetscInt *, PetscInt *);
12375d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetHeightStratum(DM, PetscInt, PetscInt *, PetscInt *);
124ba2698f1SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetPointDepth(DM, PetscInt, PetscInt *);
1250c0a32dcSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexGetPointHeight(DM, PetscInt, PetscInt *);
126ba2698f1SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetCellTypeLabel(DM, DMLabel *);
127ba2698f1SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetCellType(DM, PetscInt, DMPolytopeType *);
128412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetCellType(DM, PetscInt, DMPolytopeType);
129ba2698f1SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellTypes(DM);
13096ca5757SLisandro Dalcin PETSC_EXTERN PetscErrorCode DMPlexInvertCell(DMPolytopeType, PetscInt[]);
13196ca5757SLisandro Dalcin PETSC_EXTERN PetscErrorCode DMPlexReorderCell(DM, PetscInt, PetscInt[]);
13296ca5757SLisandro Dalcin 
13375d3a19aSMatthew G. Knepley 
13475d3a19aSMatthew G. Knepley /* Topological Operations */
135552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
136552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetFullMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
137552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRestoreMeet(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
138552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
139552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetFullJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
140552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRestoreJoin(DM, PetscInt, const PetscInt [], PetscInt *, const PetscInt **);
141552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
142552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexRestoreTransitiveClosure(DM, PetscInt, PetscBool, PetscInt *, PetscInt *[]);
143552f7358SJed Brown 
14475d3a19aSMatthew G. Knepley /* Mesh Generation */
145552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGenerate(DM, const char [], PetscBool , DM *);
1463f2a96e3SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGenerateRegister(const char[],PetscErrorCode (*)(DM,PetscBool,DM*),PetscErrorCode (*)(DM,PetscReal*,DM*),PetscErrorCode (*)(DM,DMLabel,DM*),PetscInt);
1473a074057SBarry Smith PETSC_EXTERN PetscErrorCode DMPlexGenerateRegisterAll(void);
1483a074057SBarry Smith PETSC_EXTERN PetscErrorCode DMPlexGenerateRegisterDestroy(void);
149930319cbSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCopyCoordinates(DM, DM);
1500fdc7489SMatthew Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateDoublet(MPI_Comm, PetscInt, PetscBool, PetscBool, PetscReal, DM *);
15126492d91SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSquareBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
152552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateCubeBoundary(DM, const PetscReal [], const PetscReal [], const PetscInt []);
153768d5fceSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateBoxMesh(MPI_Comm, PetscInt, PetscBool, const PetscInt[], const PetscReal[], const PetscReal[], const DMBoundaryType[], PetscBool, DM *);
15451a74b61SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSphereMesh(MPI_Comm, PetscInt, PetscBool, PetscReal, DM *);
15551a74b61SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateBallMesh(MPI_Comm, PetscInt, PetscReal, DM *);
156dbc1dc17SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateHexCylinderMesh(MPI_Comm, PetscInt, DMBoundaryType, DM *);
15724119c2aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateWedgeCylinderMesh(MPI_Comm, PetscInt, PetscBool, DM *);
15800dabe28SStefano Zampini PETSC_EXTERN PetscErrorCode DMPlexCreateWedgeBoxMesh(MPI_Comm, const PetscInt[], const PetscReal[], const PetscReal[], const DMBoundaryType[], PetscBool, PetscBool, DM *);
159d0fcb9c2SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexExtrude(DM, PetscInt, PetscReal, PetscBool, const PetscReal[], PetscBool, DM *);
160552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateConeSection(DM, PetscSection *);
161068a5610SStefano Zampini 
162ca8062c8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCheckSymmetry(DM);
16325c50c26SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCheckSkeleton(DM, PetscInt);
16425c50c26SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCheckFaces(DM, PetscInt);
165bb6a34a8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCheckGeometry(DM);
16603da9461SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCheckPointSF(DM);
167a8432d5bSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCheckInterfaceCones(DM);
16843fa8764SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCheckCellShape(DM, PetscBool, PetscReal);
169f108dbd7SJacob Faibussowitsch PETSC_EXTERN PetscErrorCode DMPlexComputeOrthogonalQuality(DM, PetscFV, PetscReal, Vec *, DMLabel *);
17075d3a19aSMatthew G. Knepley 
171d9deefdfSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTriangleSetOptions(DM, const char *);
172776fd405SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTetgenSetOptions(DM, const char *);
173d9deefdfSMatthew G. Knepley 
174d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFromFile(MPI_Comm, const char[], PetscBool, DM *);
175d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateExodus(MPI_Comm, PetscInt, PetscBool, DM *);
176d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateExodusFromFile(MPI_Comm, const char [], PetscBool, DM *);
177d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCGNS(MPI_Comm, PetscInt, PetscBool, DM *);
178d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCGNSFromFile(MPI_Comm, const char[], PetscBool, DM *);
179d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateGmsh(MPI_Comm, PetscViewer, PetscBool, DM *);
180d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateGmshFromFile(MPI_Comm, const char [], PetscBool, DM *);
181d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFluent(MPI_Comm, PetscViewer, PetscBool, DM *);
182d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateFluentFromFile(MPI_Comm, const char [], PetscBool, DM *);
183d6218766SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateMedFromFile(MPI_Comm, const char [], PetscBool, DM *);
184f2801cd6SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreatePLYFromFile(MPI_Comm, const char [], PetscBool, DM *);
1857bee2925SMatthew Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateEGADSFromFile(MPI_Comm, const char [], DM *);
186d6218766SMatthew G. Knepley 
1876823f3c5SBlaise Bourdin PETSC_EXTERN PetscErrorCode PetscViewerExodusIIOpen(MPI_Comm comm, const char name[], PetscFileMode type, PetscViewer *exo);
1881e50132fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscViewerExodusIIGetId(PetscViewer, int *);
1896823f3c5SBlaise Bourdin PETSC_EXTERN PetscErrorCode PetscViewerExodusIISetOrder(PetscViewer,PetscInt);
1906823f3c5SBlaise Bourdin PETSC_EXTERN PetscErrorCode PetscViewerExodusIIGetOrder(PetscViewer,PetscInt*);
1911e50132fSMatthew G. Knepley 
19275d3a19aSMatthew G. Knepley /* Mesh Partitioning and Distribution */
193552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexCreateNeighborCSR(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **);
1945680f57bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetPartitioner(DM, PetscPartitioner *);
19571bb2955SLawrence Mitchell PETSC_EXTERN PetscErrorCode DMPlexSetPartitioner(DM, PetscPartitioner);
1963fa7752dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexCreatePartitionerGraph(DM, PetscInt, PetscInt *, PetscInt **, PetscInt **, IS *);
1971fd9873aSMichael Lange PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelInvert(DM, DMLabel, PetscSF, DMLabel);
1985abbe4feSMichael Lange PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelClosure(DM, DMLabel);
19924d039d7SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelAdjacency(DM, DMLabel);
200be200f8dSMichael Lange PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelPropagate(DM, DMLabel);
201aa3148a8SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexPartitionLabelCreateSF(DM, DMLabel, PetscSF *);
20298ba2d7fSLawrence Mitchell PETSC_EXTERN PetscErrorCode DMPlexSetPartitionBalance(DM, PetscBool);
20398ba2d7fSLawrence Mitchell PETSC_EXTERN PetscErrorCode DMPlexGetPartitionBalance(DM, PetscBool *);
2045fa78c88SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexIsDistributed(DM, PetscBool *);
20580cf41d5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexDistribute(DM, PetscInt, PetscSF*, DM*);
206b9f40539SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexDistributeOverlap(DM, PetscInt, PetscSF *, DM *);
207cb54e036SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexGetOverlap(DM, PetscInt *);
208552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexDistributeField(DM,PetscSF,PetscSection,Vec,PetscSection,Vec);
209b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexDistributeFieldIS(DM, PetscSF, PetscSection, IS, PetscSection, IS *);
210552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexDistributeData(DM,PetscSF,PetscSection,MPI_Datatype,void*,PetscSection,void**);
2118b879b41SFlorian Wechsung PETSC_EXTERN PetscErrorCode DMPlexRebalanceSharedPoints(DM, PetscInt, PetscBool, PetscBool, PetscBool*);
21245800214SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexMigrate(DM, PetscSF, DM);
213a13df41bSStefano Zampini PETSC_EXTERN PetscErrorCode DMPlexGetGatherDM(DM, PetscSF*, DM*);
214a13df41bSStefano Zampini PETSC_EXTERN PetscErrorCode DMPlexGetRedundantDM(DM, PetscSF*, DM*);
2153c1f0c11SLawrence Mitchell PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUser(DM, PetscErrorCode (*)(DM,PetscInt,PetscInt*,PetscInt[],void*),void*);
2163c1f0c11SLawrence Mitchell PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUser(DM, PetscErrorCode (**)(DM,PetscInt,PetscInt*,PetscInt[],void*),void**);
217a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetAdjacencyUseAnchors(DM,PetscBool);
218a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetAdjacencyUseAnchors(DM,PetscBool*);
21970034214SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetAdjacency(DM, PetscInt, PetscInt *, PetscInt *[]);
220f94b4a02SBlaise Bourdin PETSC_EXTERN PetscErrorCode DMPlexSetMigrationSF(DM, PetscSF);
221f94b4a02SBlaise Bourdin PETSC_EXTERN PetscErrorCode DMPlexGetMigrationSF(DM, PetscSF *);
22275d3a19aSMatthew G. Knepley 
223c99f2573SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetOrdering(DM, MatOrderingType, DMLabel, IS *);
224f5cedc29SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexPermute(DM, IS, DM *);
225f5cedc29SMatthew G. Knepley 
226b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateProcessSF(DM, PetscSF, IS *, PetscSF *);
227b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateTwoSidedProcessSF(DM, PetscSF, PetscSection, IS, PetscSection, IS, IS *, PetscSF *);
228b0a623aaSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexDistributeOwnership(DM, PetscSection, IS *, PetscSection, IS *);
229dccdeccaSVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexCreateOverlapLabel(DM, PetscInt, PetscSection, IS, PetscSection, IS, DMLabel *);
23046f9b1c3SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexCreateOverlapMigrationSF(DM, PetscSF, PetscSF *);
23145800214SMichael Lange PETSC_EXTERN PetscErrorCode DMPlexStratifyMigrationSF(DM, PetscSF, PetscSF *);
232b0a623aaSMatthew G. Knepley 
23375d3a19aSMatthew G. Knepley /* Submesh Support */
234158acfadSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSubmesh(DM, DMLabel, PetscInt, PetscBool, DM*);
2357db7e0a7SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateHybridMesh(DM, DMLabel, DMLabel, DMLabel *, DMLabel *, DM *, DM *);
236552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetSubpointMap(DM, DMLabel*);
237552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetSubpointMap(DM, DMLabel);
23897d8846cSMatthew Knepley PETSC_EXTERN PetscErrorCode DMPlexGetSubpointIS(DM, IS *);
239a6e0b375SMatthew G. Knepley 
240a6e0b375SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMGetEnclosureRelation(DM, DM, DMEnclosureType *);
241a6e0b375SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMGetEnclosurePoint(DM, DM, DMEnclosureType, PetscInt, PetscInt *);
242552f7358SJed Brown 
2432be2b188SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelComplete(DM, DMLabel);
2440f66a230SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelCohesiveComplete(DM, DMLabel, DMLabel, PetscBool, DM);
2456cf0e42fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelAddCells(DM, DMLabel);
246a6e0b375SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLabelAddFaceCells(DM, DMLabel);
247f402d5e4SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexLabelClearCells(DM, DMLabel);
248552f7358SJed Brown 
24975d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetRefinementLimit(DM, PetscReal *);
25075d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetRefinementLimit(DM, PetscReal);
25175d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetRefinementUniform(DM, PetscBool *);
25275d3a19aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetRefinementUniform(DM, PetscBool);
2531e4cba6aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetRefinementFunction(DM, PetscErrorCode (**)(const PetscReal [], PetscReal *));
2541e4cba6aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetRefinementFunction(DM, PetscErrorCode (*)(const PetscReal [], PetscReal *));
2552389894bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateCoarsePointIS(DM, IS *);
2560aef6b92SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetRegularRefinement(DM, PetscBool *);
2570aef6b92SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetRegularRefinement(DM, PetscBool);
258412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetCellRefinerType(DM, DMPlexCellRefinerType *);
259412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetCellRefinerType(DM, DMPlexCellRefinerType);
260552f7358SJed Brown 
26118ad9376SMatthew G. Knepley /* Support for cell-vertex meshes */
26218ad9376SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetNumFaceVertices(DM, PetscInt, PetscInt, PetscInt *);
263f5d69827SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetOrientedFace(DM, PetscInt, PetscInt, const PetscInt [], PetscInt, PetscInt [], PetscInt [], PetscInt [], PetscBool *);
26418ad9376SMatthew G. Knepley 
2650f0bf202SMatthew G. Knepley /* Geometry Support */
2660f0bf202SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetMinRadius(DM, PetscReal *);
2670f0bf202SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetMinRadius(DM, PetscReal);
268741bfc07SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeProjection2Dto1D(PetscScalar[], PetscReal[]);
269741bfc07SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeProjection3Dto1D(PetscScalar[], PetscReal[]);
270741bfc07SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeProjection3Dto2D(PetscInt, PetscScalar[], PetscReal[]);
2710f0bf202SMatthew G. Knepley 
272c4eade1cSMatthew G. Knepley /* Point Location */
273c4eade1cSMatthew G. Knepley typedef struct _PetscGridHash *PetscGridHash;
274c4eade1cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscGridHashCreate(MPI_Comm, PetscInt, const PetscScalar[], PetscGridHash *);
275c4eade1cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscGridHashEnlarge(PetscGridHash, const PetscScalar []);
276c4eade1cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscGridHashSetGrid(PetscGridHash, const PetscInt [], const PetscReal []);
2771c6dfc3eSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscGridHashGetEnclosingBox(PetscGridHash, PetscInt, const PetscScalar [], PetscInt [], PetscInt []);
278c4eade1cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode PetscGridHashDestroy(PetscGridHash *);
2793985bb02SVaclav Hapla PETSC_EXTERN PetscErrorCode DMPlexFindVertices(DM, PetscInt, const PetscReal [], PetscReal, PetscInt []);
280c4eade1cSMatthew G. Knepley 
281834e62ceSMatthew G. Knepley /* FVM Support */
282cc08537eSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFVM(DM, PetscInt, PetscReal *, PetscReal [], PetscReal []);
2830f0bf202SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFVM(DM, Vec *, Vec *);
284856ac710SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeGradientFVM(DM, PetscFV, Vec, Vec, DM *);
285b27d5b9eSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetDataFVM(DM, PetscFV, Vec *, Vec *, DM *);
286834e62ceSMatthew G. Knepley 
287552f7358SJed Brown /* FEM Support */
288cf0b7c11SKarl Rupp PETSC_EXTERN PetscErrorCode DMPlexComputeGeometryFEM(DM, Vec *);
2893e9753d6SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetGeometryFVM(DM,Vec*,Vec*,PetscReal*);
2903e9753d6SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetGradientDM(DM,PetscFV,DM*);
291bdd6f66aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValues(DM, PetscBool, Vec, PetscReal, Vec, Vec, Vec);
29256cf3b9cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertTimeDerivativeBoundaryValues(DM, PetscBool, Vec, PetscReal, Vec, Vec, Vec);
2931c531cf8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssential(DM, PetscReal, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt[],
294b278463cSMatthew G. Knepley                                                                 PetscErrorCode (*)(PetscInt, PetscReal, const PetscReal[], PetscInt, PetscScalar *, void *), void *, Vec);
2951c531cf8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssentialField(DM, PetscReal, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
296b278463cSMatthew G. Knepley                                                                      void (*)(PetscInt, PetscInt, PetscInt,
297b278463cSMatthew G. Knepley                                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
298b278463cSMatthew G. Knepley                                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
299191494d9SMatthew G. Knepley                                                                               PetscReal, const PetscReal[], PetscInt, const PetscScalar[],
300b278463cSMatthew G. Knepley                                                                               PetscScalar[]),
301b278463cSMatthew G. Knepley                                                                      void *, Vec);
302ece3a9fcSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesEssentialBdField(DM, PetscReal, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
303ece3a9fcSMatthew G. Knepley                                                                        void (*)(PetscInt, PetscInt, PetscInt,
304ece3a9fcSMatthew G. Knepley                                                                                 const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
305ece3a9fcSMatthew G. Knepley                                                                                 const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
306ece3a9fcSMatthew G. Knepley                                                                                 PetscReal, const PetscReal[], const PetscReal[], PetscInt, const PetscScalar[],
307ece3a9fcSMatthew G. Knepley                                                                                 PetscScalar[]),
308ece3a9fcSMatthew G. Knepley                                                                        void *, Vec);
3091c531cf8SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexInsertBoundaryValuesRiemann(DM, PetscReal, Vec, Vec, Vec, PetscInt, PetscInt, const PetscInt[], DMLabel, PetscInt, const PetscInt [],
310b278463cSMatthew G. Knepley                                                               PetscErrorCode (*)(PetscReal,const PetscReal*,const PetscReal*,const PetscScalar*,PetscScalar*,void*), void *, Vec);
311e752be1aSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMarkBoundaryFaces(DM, PetscInt, DMLabel);
312d7ddef95SMatthew G. Knepley 
313baef929fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateSection(DM, DMLabel [], const PetscInt [], const PetscInt [], PetscInt, const PetscInt [], const IS [], const IS [], IS, PetscSection *);
314be36d101SStefano Zampini PETSC_EXTERN PetscErrorCode DMPlexGetSubdomainSection(DM, PetscSection*);
31575d3a19aSMatthew G. Knepley 
3168e0841e0SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryAffineFEM(DM, PetscInt, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
317dfccc68fSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexComputeCellGeometryFEM(DM, PetscInt, PetscQuadrature, PetscReal *, PetscReal *, PetscReal *, PetscReal *);
318d6143a4eSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexCoordinatesToReference(DM, PetscInt, PetscInt, const PetscReal [], PetscReal[]);
3199d150b73SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexReferenceToCoordinates(DM, PetscInt, PetscInt, const PetscReal [], PetscReal[]);
3203ee9839eSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexShearGeometry(DM, DMDirection, PetscReal[]);
3210139fca9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexRemapGeometry(DM, PetscReal,
3220139fca9SMatthew G. Knepley                                                 void (*)(PetscInt, PetscInt, PetscInt,
3230139fca9SMatthew G. Knepley                                                          const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
3240139fca9SMatthew G. Knepley                                                          const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
3250139fca9SMatthew G. Knepley                                                          PetscReal, const PetscReal[], PetscInt, const PetscScalar[], PetscScalar[]));
326d6143a4eSToby Isaac 
3277c1f9639SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexVecGetClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
3287c1f9639SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexVecRestoreClosure(DM, PetscSection, Vec, PetscInt, PetscInt *, PetscScalar *[]);
329552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexVecSetClosure(DM, PetscSection, Vec, PetscInt, const PetscScalar[], InsertMode);
3307c1f9639SMatthew G Knepley PETSC_EXTERN PetscErrorCode DMPlexMatSetClosure(DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
33171f0bbf9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMatSetClosureGeneral(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
33271f0bbf9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetClosureIndices(DM, PetscSection, PetscSection, PetscInt, PetscBool, PetscInt *, PetscInt *[], PetscInt *, PetscScalar *[]);
33371f0bbf9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexRestoreClosureIndices(DM, PetscSection, PetscSection, PetscInt, PetscBool, PetscInt *, PetscInt *[], PetscInt *, PetscScalar *[]);
3340405ed22SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMatSetClosureRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, Mat, PetscInt, const PetscScalar[], InsertMode);
3357c927364SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMatGetClosureIndicesRefined(DM, PetscSection, PetscSection, DM, PetscSection, PetscSection, PetscInt, PetscInt[], PetscInt[]);
336ee72d991SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateClosureIndex(DM, PetscSection);
337bc1eb3faSJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetClosurePermutationTensor(DM, PetscInt, PetscSection);
338552f7358SJed Brown 
339552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexConstructGhostCells(DM, const char [], PetscInt *, DM *);
3407db7e0a7SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexConstructCohesiveCells(DM, DMLabel, DMLabel, DM *);
341552f7358SJed Brown 
342552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetVTKCellHeight(DM, PetscInt *);
343552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetVTKCellHeight(DM, PetscInt);
344552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexVTKWriteAll(PetscObject, PetscViewer);
345e6139122SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetGhostCellStratum(DM, PetscInt *, PetscInt *);
346412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetSimplexOrBoxCells(DM, PetscInt, PetscInt *, PetscInt *);
347552f7358SJed Brown 
3482f856554SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetCellFields(DM, IS, Vec, Vec, Vec, PetscScalar **, PetscScalar **, PetscScalar **);
3492f856554SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexRestoreCellFields(DM, IS, Vec, Vec, Vec, PetscScalar **, PetscScalar **, PetscScalar **);
3502f856554SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetFaceFields(DM, PetscInt, PetscInt, Vec, Vec, Vec, Vec, Vec, PetscInt *, PetscScalar **, PetscScalar **);
3512f856554SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexRestoreFaceFields(DM, PetscInt, PetscInt, Vec, Vec, Vec, Vec, Vec, PetscInt *, PetscScalar **, PetscScalar **);
3522f856554SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetFaceGeometry(DM, PetscInt, PetscInt, Vec, Vec, PetscInt *, PetscFVFaceGeom **, PetscReal **);
3532f856554SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexRestoreFaceGeometry(DM, PetscInt, PetscInt, Vec, Vec, PetscInt *, PetscFVFaceGeom **, PetscReal **);
3542f856554SMatthew G. Knepley 
355552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexGetScale(DM, PetscUnit, PetscReal *);
356552f7358SJed Brown PETSC_EXTERN PetscErrorCode DMPlexSetScale(DM, PetscUnit, PetscReal);
357552f7358SJed Brown 
358552f7358SJed Brown typedef struct {
359552f7358SJed Brown   DM    dm;
36028d58a37SPierre Jolivet   Vec   u; /* The base vector for the Jacobian action J(u) x */
361552f7358SJed Brown   Mat   J; /* Preconditioner for testing */
362552f7358SJed Brown   void *user;
363552f7358SJed Brown } JacActionCtx;
364552f7358SJed Brown 
365b29cfa1cSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetMaxProjectionHeight(DM, PetscInt);
366b29cfa1cSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetMaxProjectionHeight(DM, PetscInt*);
3671b32699bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGetActivePoint(DM, PetscInt*);
3681b32699bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSetActivePoint(DM, PetscInt);
369e29c0834SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexProjectFieldLocal(DM, Vec,
370e29c0834SMatthew G. Knepley                                                     void (**)(PetscInt, PetscInt, PetscInt,
371e29c0834SMatthew G. Knepley                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
372e29c0834SMatthew G. Knepley                                                               const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
373e29c0834SMatthew G. Knepley                                                               PetscReal, const PetscReal [], PetscScalar []), InsertMode, Vec);
374574a98acSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeL2DiffLocal(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, PetscReal *);
3750163fd50SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeL2FieldDiff(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, PetscReal[]);
3760163fd50SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeL2DiffVec(DM, PetscReal, PetscErrorCode (**)(PetscInt, PetscReal, const PetscReal [], PetscInt, PetscScalar *, void *), void **, Vec, Vec);
377338f77d5SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeCellwiseIntegralFEM(DM, Vec, Vec, void *);
378b8feb594SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeIntegralFEM(DM, Vec, PetscScalar *, void *);
3799b6f715bSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeBdIntegral(DM, Vec, DMLabel, PetscInt, const PetscInt[],
3809b6f715bSMatthew G. Knepley                                                     void (*)(PetscInt, PetscInt, PetscInt,
3819b6f715bSMatthew G. Knepley                                                              const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
3829b6f715bSMatthew G. Knepley                                                              const PetscInt[], const PetscInt[], const PetscScalar[], const PetscScalar[], const PetscScalar[],
3839b6f715bSMatthew G. Knepley                                                              PetscReal, const PetscReal[], const PetscReal[], PetscInt, const PetscScalar[], PetscScalar[]),
3849b6f715bSMatthew G. Knepley                                                     PetscScalar *, void *);
385cf51de39SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorNested(DM, DM, PetscBool, Mat, void *);
38668132eb9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorGeneral(DM, DM, Mat, void *);
3871555c271SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeGradientClementInterpolant(DM, Vec, Vec);
3887c927364SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorFEM(DM, DM, VecScatter *, void *);
3892cb13a97SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeMassMatrixNested(DM, DM, Mat, void *);
3902cb13a97SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeMassMatrixGeneral(DM, DM, Mat, void *);
3911c41a8caSMatthew G. Knepley 
39256cf3b9cSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateRigidBody(DM, PetscInt, MatNullSpace *);
393fd86e548SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateRigidBodies(DM, PetscInt, DMLabel, const PetscInt[], const PetscInt[], MatNullSpace *);
394026175e5SToby Isaac 
3959f520fc2SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetSNESLocalFEM(DM,void *,void *,void *);
396bdd6f66aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSNESComputeBoundaryFEM(DM, Vec, void *);
3970f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSNESComputeResidualFEM(DM, Vec, Vec, void *);
3980f2d7e86SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSNESComputeJacobianFEM(DM, Vec, Mat, Mat, void *);
3997a73cf09SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeJacobianAction(DM, IS, PetscReal, PetscReal, Vec, Vec, Vec, Vec, void *);
40045480ffeSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeBdResidualSingle(DM, PetscReal, PetscWeakForm, DMLabel, PetscInt, const PetscInt[], PetscInt, Vec, Vec, Vec);
40145480ffeSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeBdJacobianSingle(DM, PetscReal, PetscWeakForm, DMLabel, PetscInt, const PetscInt[], PetscInt, Vec, Vec, PetscReal, Mat, Mat);
4020f2d7e86SMatthew G. Knepley 
403ef68eab9SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTSComputeBoundary(DM, PetscReal, Vec, Vec, void *);
404924a1b8fSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTSComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
405adbe6fbbSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTSComputeIFunctionFEM(DM, PetscReal, Vec, Vec, Vec, void *);
406756a1f44SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexTSComputeIJacobianFEM(DM, PetscReal, Vec, Vec, PetscReal, Mat, Mat, void *);
407adbe6fbbSMatthew G. Knepley 
4081c41a8caSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexComputeRHSFunctionFVM(DM, PetscReal, Vec, Vec, void *);
4095d16530eSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexReconstructGradientsFVM(DM,Vec,Vec);
410a68b90caSToby Isaac 
411a17985deSToby Isaac /* anchors */
412a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetAnchors(DM, PetscSection*, IS*);
413a17985deSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetAnchors(DM, PetscSection, IS);
414d6a7ad0dSToby Isaac /* tree */
415d6a7ad0dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetReferenceTree(DM, DM);
416d6a7ad0dSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetReferenceTree(DM, DM*);
417dcbd3bf7SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexReferenceTreeGetChildSymmetry(DM, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt, PetscInt *, PetscInt *);
418da43764aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexCreateDefaultReferenceTree(MPI_Comm, PetscInt, PetscBool, DM*);
419b2f41788SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexSetTree(DM, PetscSection, PetscInt [], PetscInt []);
420b2f41788SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetTree(DM, PetscSection *, PetscInt *[], PetscInt *[], PetscSection *, PetscInt *[]);
421d961a43aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetTreeParent(DM, PetscInt, PetscInt *, PetscInt *);
422d961a43aSToby Isaac PETSC_EXTERN PetscErrorCode DMPlexGetTreeChildren(DM, PetscInt, PetscInt *, const PetscInt *[]);
4236f5f1567SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexTreeRefineCell(DM, PetscInt, DM *);
4243b490a17SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorReferenceTree(DM, Mat *);
425bbcf1e96SToby Isaac PETSC_EXTERN PetscErrorCode DMPlexTransferVecTree(DM,Vec,DM,Vec,PetscSF,PetscSF,PetscInt *,PetscInt *,PetscBool,PetscReal);
426fa534816SMatthew G. Knepley 
427c0f0dcc3SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexMonitorThroughput(DM, void *);
428c0f0dcc3SMatthew G. Knepley 
429fa534816SMatthew G. Knepley /* natural order */
430fa534816SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateGlobalToNaturalSF(DM, PetscSection, PetscSF, PetscSF *);
431f94b4a02SBlaise Bourdin PETSC_EXTERN PetscErrorCode DMPlexSetGlobalToNaturalSF(DM, PetscSF);
432f94b4a02SBlaise Bourdin PETSC_EXTERN PetscErrorCode DMPlexGetGlobalToNaturalSF(DM, PetscSF *);
433fa534816SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGlobalToNaturalBegin(DM, Vec, Vec);
434fa534816SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGlobalToNaturalEnd(DM, Vec, Vec);
435fa534816SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexNaturalToGlobalBegin(DM, Vec, Vec);
436fa534816SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexNaturalToGlobalEnd(DM, Vec, Vec);
4370bbe5d31Sbarral 
4380bbe5d31Sbarral /* mesh adaptation */
4390f7e110dSbarral PETSC_EXTERN PetscErrorCode DMPlexAdapt(DM, Vec, const char [], DM *);
440a8ededdfSMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexSnapToGeomModel(DM, PetscInt, const PetscScalar[], PetscScalar[]);
441ca3d3a14SMatthew G. Knepley 
442ca3d3a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexGlobalToLocalBasis(DM, Vec);
443ca3d3a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexLocalToGlobalBasis(DM, Vec);
444ca3d3a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCreateBasisRotation(DM, PetscReal, PetscReal, PetscReal);
445412e9a14SMatthew G. Knepley 
446412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCellRefinerCreate(DM, DMPlexCellRefiner *);
447412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCellRefinerSetUp(DMPlexCellRefiner);
448412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCellRefinerDestroy(DMPlexCellRefiner *);
4493f2a96e3SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCellRefinerRefine(DMPlexCellRefiner, DMPolytopeType, PetscInt, PetscInt *, PetscInt *, DMPolytopeType *[], PetscInt *[], PetscInt *[], PetscInt *[]);
450412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCellRefinerGetAffineTransforms(DMPlexCellRefiner, DMPolytopeType, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[]);
451412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexCellRefinerGetAffineFaceTransforms(DMPlexCellRefiner, DMPolytopeType, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[], PetscReal *[]);
452412e9a14SMatthew G. Knepley PETSC_EXTERN PetscErrorCode DMPlexRefineUniform(DM, DMPlexCellRefiner, DM *);
453e0eea495SMark 
454dec9e869Sksagiyam PETSC_EXTERN PetscErrorCode DMPlexTopologyLoad(DM, PetscViewer, PetscSF*);
4553e701f1cSksagiyam PETSC_EXTERN PetscErrorCode DMPlexCoordinatesLoad(DM, PetscViewer);
456*b08ad5deSksagiyam PETSC_EXTERN PetscErrorCode DMPlexLabelsLoad(DM, PetscViewer);
457ea8e1828Sksagiyam 
458552f7358SJed Brown #endif
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