Actual source code: dmpleximpl.h
petsc-master 2019-11-16
1: #if !defined(_PLEXIMPL_H)
2: #define _PLEXIMPL_H
4: #include <petscmat.h>
5: #include <petscdmplex.h>
6: #include <petscbt.h>
7: #include <petscsf.h>
8: #include <petsc/private/dmimpl.h>
10: PETSC_EXTERN PetscLogEvent DMPLEX_Interpolate;
11: PETSC_EXTERN PetscLogEvent DMPLEX_Partition;
12: PETSC_EXTERN PetscLogEvent DMPLEX_PartSelf;
13: PETSC_EXTERN PetscLogEvent DMPLEX_PartLabelInvert;
14: PETSC_EXTERN PetscLogEvent DMPLEX_PartLabelCreateSF;
15: PETSC_EXTERN PetscLogEvent DMPLEX_PartStratSF;
16: PETSC_EXTERN PetscLogEvent DMPLEX_CreatePointSF;
17: PETSC_EXTERN PetscLogEvent DMPLEX_Distribute;
18: PETSC_EXTERN PetscLogEvent DMPLEX_DistributeCones;
19: PETSC_EXTERN PetscLogEvent DMPLEX_DistributeLabels;
20: PETSC_EXTERN PetscLogEvent DMPLEX_DistributeSF;
21: PETSC_EXTERN PetscLogEvent DMPLEX_DistributeOverlap;
22: PETSC_EXTERN PetscLogEvent DMPLEX_DistributeField;
23: PETSC_EXTERN PetscLogEvent DMPLEX_DistributeData;
24: PETSC_EXTERN PetscLogEvent DMPLEX_Migrate;
25: PETSC_EXTERN PetscLogEvent DMPLEX_InterpolateSF;
26: PETSC_EXTERN PetscLogEvent DMPLEX_GlobalToNaturalBegin;
27: PETSC_EXTERN PetscLogEvent DMPLEX_GlobalToNaturalEnd;
28: PETSC_EXTERN PetscLogEvent DMPLEX_NaturalToGlobalBegin;
29: PETSC_EXTERN PetscLogEvent DMPLEX_NaturalToGlobalEnd;
30: PETSC_EXTERN PetscLogEvent DMPLEX_Stratify;
31: PETSC_EXTERN PetscLogEvent DMPLEX_Symmetrize;
32: PETSC_EXTERN PetscLogEvent DMPLEX_Preallocate;
33: PETSC_EXTERN PetscLogEvent DMPLEX_ResidualFEM;
34: PETSC_EXTERN PetscLogEvent DMPLEX_JacobianFEM;
35: PETSC_EXTERN PetscLogEvent DMPLEX_InterpolatorFEM;
36: PETSC_EXTERN PetscLogEvent DMPLEX_InjectorFEM;
37: PETSC_EXTERN PetscLogEvent DMPLEX_IntegralFEM;
38: PETSC_EXTERN PetscLogEvent DMPLEX_CreateGmsh;
39: PETSC_EXTERN PetscLogEvent DMPLEX_RebalanceSharedPoints;
41: PETSC_EXTERN PetscBool PetscPartitionerRegisterAllCalled;
42: PETSC_EXTERN PetscErrorCode PetscPartitionerRegisterAll(void);
44: PETSC_EXTERN const char * const CellRefiners[];
45: typedef enum {REFINER_NOOP = 0,
46: REFINER_SIMPLEX_1D,
47: REFINER_SIMPLEX_2D,
48: REFINER_HYBRID_SIMPLEX_2D,
49: REFINER_SIMPLEX_TO_HEX_2D,
50: REFINER_HYBRID_SIMPLEX_TO_HEX_2D,
51: REFINER_HEX_2D,
52: REFINER_HYBRID_HEX_2D,
53: REFINER_SIMPLEX_3D,
54: REFINER_HYBRID_SIMPLEX_3D,
55: REFINER_SIMPLEX_TO_HEX_3D,
56: REFINER_HYBRID_SIMPLEX_TO_HEX_3D,
57: REFINER_HEX_3D,
58: REFINER_HYBRID_HEX_3D} CellRefiner;
60: typedef struct _PetscPartitionerOps *PetscPartitionerOps;
61: struct _PetscPartitionerOps {
62: PetscErrorCode (*setfromoptions)(PetscOptionItems*,PetscPartitioner);
63: PetscErrorCode (*setup)(PetscPartitioner);
64: PetscErrorCode (*view)(PetscPartitioner,PetscViewer);
65: PetscErrorCode (*destroy)(PetscPartitioner);
66: PetscErrorCode (*partition)(PetscPartitioner, DM, PetscInt, PetscInt, PetscInt[], PetscInt[], PetscSection, IS *);
67: };
69: struct _p_PetscPartitioner {
70: PETSCHEADER(struct _PetscPartitionerOps);
71: void *data; /* Implementation object */
72: PetscInt height; /* Height of points to partition into non-overlapping subsets */
73: PetscInt edgeCut; /* The number of edge cut by the partition */
74: PetscReal balance; /* The maximum partition size divided by the minimum size */
75: PetscViewer viewerGraph;
76: PetscViewerFormat formatGraph;
77: PetscBool viewGraph;
78: PetscBool noGraph; /* if true, the partitioner does not need the connectivity graph, only the number of local vertices */
79: };
81: typedef struct {
82: PetscInt dummy;
83: } PetscPartitioner_Chaco;
85: typedef struct {
86: PetscInt ptype;
87: PetscReal imbalanceRatio;
88: PetscInt debugFlag;
89: PetscInt randomSeed;
90: } PetscPartitioner_ParMetis;
92: typedef struct {
93: PetscInt strategy;
94: PetscReal imbalance;
95: } PetscPartitioner_PTScotch;
97: static const char *const
98: PTScotchStrategyList[] = {
99: "DEFAULT",
100: "QUALITY",
101: "SPEED",
102: "BALANCE",
103: "SAFETY",
104: "SCALABILITY",
105: "RECURSIVE",
106: "REMAP"
107: };
109: typedef struct {
110: PetscSection section; /* Sizes for each partition */
111: IS partition; /* Points in each partition */
112: PetscBool random; /* Flag for a random partition */
113: } PetscPartitioner_Shell;
115: typedef struct {
116: PetscInt dummy;
117: } PetscPartitioner_Simple;
119: typedef struct {
120: PetscInt dummy;
121: } PetscPartitioner_Gather;
123: /* Utility struct to store the contents of a Fluent file in memory */
124: typedef struct {
125: int index; /* Type of section */
126: unsigned int zoneID;
127: unsigned int first;
128: unsigned int last;
129: int type;
130: int nd; /* Either ND or element-type */
131: void *data;
132: } FluentSection;
134: struct _PetscGridHash {
135: PetscInt dim;
136: PetscReal lower[3]; /* The lower-left corner */
137: PetscReal upper[3]; /* The upper-right corner */
138: PetscReal extent[3]; /* The box size */
139: PetscReal h[3]; /* The subbox size */
140: PetscInt n[3]; /* The number of subboxes */
141: PetscSection cellSection; /* Offsets for cells in each subbox*/
142: IS cells; /* List of cells in each subbox */
143: DMLabel cellsSparse; /* Sparse storage for cell map */
144: };
146: /* Point Numbering in Plex:
148: Points are numbered contiguously by stratum. Strate are organized as follows:
150: First Stratum: Cells [height 0]
151: Second Stratum: Vertices [depth 0]
152: Third Stratum: Faces [height 1]
153: Fourth Stratum: Edges [depth 1]
155: We do this so that the numbering of a cell-vertex mesh does not change after interpolation. Within a given stratum,
156: we allow additional segregation of points. When hybrid, or prismatic, points are present, the first hybrid point in
157: a stratum is indicated by hybridPointMax[depth]. In addition, we allow ghost cells to be defined for use in finite
158: volume methods, and these do not have full cones. These cells occur after any hybrid cells, and this division is
159: indicated by ghostCellStart.
160: */
161: typedef struct {
162: PetscInt refct;
164: PetscSection coneSection; /* Layout of cones (inedges for DAG) */
165: PetscInt maxConeSize; /* Cached for fast lookup */
166: PetscInt *cones; /* Cone for each point */
167: PetscInt *coneOrientations; /* Orientation of each cone point, means cone traveral should start on point 'o', and if negative start on -(o+1) and go in reverse */
168: PetscSection supportSection; /* Layout of cones (inedges for DAG) */
169: PetscInt maxSupportSize; /* Cached for fast lookup */
170: PetscInt *supports; /* Cone for each point */
171: PetscBool refinementUniform; /* Flag for uniform cell refinement */
172: PetscReal refinementLimit; /* Maximum volume for refined cell */
173: PetscErrorCode (*refinementFunc)(const PetscReal [], PetscReal *); /* Function giving the maximum volume for refined cell */
174: PetscInt hybridPointMax[8]; /* Allow segregation of some points, each dimension has a divider (used in VTK output and refinement) */
175: PetscInt overlap; /* Overlap of the partitions as passed to DMPlexDistribute() or DMPlexDistributeOverlap() */
176: PetscInt ghostCellStart; /* The first ghost cell (for FV BC) or -1 */
177: DMPlexInterpolatedFlag interpolated;
178: DMPlexInterpolatedFlag interpolatedCollective;
180: PetscInt *facesTmp; /* Work space for faces operation */
182: /* Hierarchy */
183: PetscBool regularRefinement; /* This flag signals that we are a regular refinement of coarseMesh */
185: /* Generation */
186: char *tetgenOpts;
187: char *triangleOpts;
188: PetscPartitioner partitioner;
189: PetscBool partitionBalance; /* Evenly divide partition overlap when distributing */
190: PetscBool remeshBd;
192: /* Submesh */
193: DMLabel subpointMap; /* Label each original mesh point in the submesh with its depth, subpoint are the implicit numbering */
195: /* Labels and numbering */
196: PetscObjectState depthState; /* State of depth label, so that we can determine if a user changes it */
197: IS globalVertexNumbers;
198: IS globalCellNumbers;
200: /* Constraints */
201: PetscSection anchorSection; /* maps constrained points to anchor points */
202: IS anchorIS; /* anchors indexed by the above section */
203: PetscErrorCode (*createanchors)(DM); /* automatically compute anchors (probably from tree constraints) */
204: PetscErrorCode (*computeanchormatrix)(DM,PetscSection,PetscSection,Mat);
206: /* Tree: automatically construct constraints for hierarchically non-conforming meshes */
207: PetscSection parentSection; /* dof == 1 if point has parent */
208: PetscInt *parents; /* point to parent */
209: PetscInt *childIDs; /* point to child ID */
210: PetscSection childSection; /* inverse of parent section */
211: PetscInt *children; /* point to children */
212: DM referenceTree; /* reference tree to which child ID's refer */
213: PetscErrorCode (*getchildsymmetry)(DM,PetscInt,PetscInt,PetscInt,PetscInt,PetscInt,PetscInt*,PetscInt*);
215: /* MATIS support */
216: PetscSection subdomainSection;
218: /* Adjacency */
219: PetscBool useAnchors; /* Replace constrained points with their anchors in adjacency lists */
220: PetscErrorCode (*useradjacency)(DM,PetscInt,PetscInt*,PetscInt[],void*); /* User callback for adjacency */
221: void *useradjacencyctx; /* User context for callback */
223: /* Projection */
224: PetscInt maxProjectionHeight; /* maximum height of cells used in DMPlexProject functions */
226: /* Output */
227: PetscInt vtkCellHeight; /* The height of cells for output, default is 0 */
228: PetscReal scale[NUM_PETSC_UNITS]; /* The scale for each SI unit */
230: /* Geometry */
231: PetscReal minradius; /* Minimum distance from cell centroid to face */
232: PetscBool useHashLocation; /* Use grid hashing for point location */
233: PetscGridHash lbox; /* Local box for searching */
235: /* Debugging */
236: PetscBool printSetValues;
237: PetscInt printFEM;
238: PetscInt printL2;
239: PetscReal printTol;
240: } DM_Plex;
242: PETSC_EXTERN PetscErrorCode DMPlexVTKWriteAll_VTU(DM,PetscViewer);
243: PETSC_EXTERN PetscErrorCode VecView_Plex_Local(Vec,PetscViewer);
244: PETSC_EXTERN PetscErrorCode VecView_Plex_Native(Vec,PetscViewer);
245: PETSC_EXTERN PetscErrorCode VecView_Plex(Vec,PetscViewer);
246: PETSC_EXTERN PetscErrorCode VecLoad_Plex_Local(Vec,PetscViewer);
247: PETSC_EXTERN PetscErrorCode VecLoad_Plex_Native(Vec,PetscViewer);
248: PETSC_EXTERN PetscErrorCode VecLoad_Plex(Vec,PetscViewer);
249: PETSC_INTERN PetscErrorCode DMPlexGetFieldType_Internal(DM, PetscSection, PetscInt, PetscInt *, PetscInt *, PetscViewerVTKFieldType *);
250: PETSC_INTERN PetscErrorCode DMPlexView_GLVis(DM,PetscViewer);
251: PETSC_INTERN PetscErrorCode DMSetUpGLVisViewer_Plex(PetscObject,PetscViewer);
252: #if defined(PETSC_HAVE_HDF5)
253: PETSC_EXTERN PetscErrorCode VecView_Plex_Local_HDF5(Vec, PetscViewer);
254: PETSC_EXTERN PetscErrorCode VecView_Plex_HDF5(Vec, PetscViewer);
255: PETSC_EXTERN PetscErrorCode VecLoad_Plex_HDF5(Vec, PetscViewer);
256: PETSC_EXTERN PetscErrorCode VecView_Plex_HDF5_Native(Vec, PetscViewer);
257: PETSC_EXTERN PetscErrorCode VecLoad_Plex_HDF5_Native(Vec, PetscViewer);
258: PETSC_EXTERN PetscErrorCode DMPlexView_HDF5(DM, PetscViewer);
259: PETSC_EXTERN PetscErrorCode DMPlexLoad_HDF5(DM, PetscViewer);
260: #endif
262: PETSC_INTERN PetscErrorCode DMPlexClosurePoints_Private(DM,PetscInt,const PetscInt[],IS*);
263: PETSC_INTERN PetscErrorCode DMSetFromOptions_NonRefinement_Plex(PetscOptionItems *, DM);
264: PETSC_INTERN PetscErrorCode DMCoarsen_Plex(DM, MPI_Comm, DM *);
265: PETSC_INTERN PetscErrorCode DMCoarsenHierarchy_Plex(DM, PetscInt, DM []);
266: PETSC_INTERN PetscErrorCode DMRefine_Plex(DM, MPI_Comm, DM *);
267: PETSC_INTERN PetscErrorCode DMRefineHierarchy_Plex(DM, PetscInt, DM []);
268: PETSC_INTERN PetscErrorCode DMAdaptLabel_Plex(DM, DMLabel, DM *);
269: PETSC_INTERN PetscErrorCode DMAdaptMetric_Plex(DM, Vec, DMLabel, DM *);
270: PETSC_INTERN PetscErrorCode DMPlexInsertBoundaryValues_Plex(DM, PetscBool, Vec, PetscReal, Vec, Vec, Vec);
271: PETSC_INTERN PetscErrorCode DMProjectFunctionLocal_Plex(DM,PetscReal,PetscErrorCode(**)(PetscInt,PetscReal,const PetscReal[],PetscInt,PetscScalar *,void *),void **,InsertMode,Vec);
272: PETSC_INTERN PetscErrorCode DMProjectFunctionLabelLocal_Plex(DM,PetscReal,DMLabel,PetscInt,const PetscInt[],PetscInt,const PetscInt[],PetscErrorCode(**)(PetscInt,PetscReal,const PetscReal[],PetscInt,PetscScalar *,void *),void **,InsertMode,Vec);
273: PETSC_INTERN PetscErrorCode DMProjectFieldLocal_Plex(DM,PetscReal,Vec,void (**)(PetscInt,PetscInt,PetscInt,const PetscInt[],const PetscInt[],const PetscScalar[],const PetscScalar[],const PetscScalar[],const PetscInt[],const PetscInt[],const PetscScalar[],const PetscScalar[],const PetscScalar[],PetscReal,const PetscReal[],PetscInt,const PetscScalar[],PetscScalar[]),InsertMode,Vec);
274: PETSC_INTERN PetscErrorCode DMProjectFieldLabelLocal_Plex(DM,PetscReal,DMLabel,PetscInt,const PetscInt[],PetscInt,const PetscInt[],Vec,void (**)(PetscInt,PetscInt,PetscInt,const PetscInt[],const PetscInt[],const PetscScalar[],const PetscScalar[],const PetscScalar[],const PetscInt[],const PetscInt[],const PetscScalar[],const PetscScalar[],const PetscScalar[],PetscReal,const PetscReal[],PetscInt,const PetscScalar[],PetscScalar[]),InsertMode,Vec);
275: PETSC_INTERN PetscErrorCode DMComputeL2Diff_Plex(DM,PetscReal,PetscErrorCode(**)(PetscInt,PetscReal,const PetscReal[],PetscInt,PetscScalar *,void *),void **,Vec,PetscReal *);
276: PETSC_INTERN PetscErrorCode DMComputeL2GradientDiff_Plex(DM,PetscReal,PetscErrorCode(**)(PetscInt,PetscReal,const PetscReal[], const PetscReal[],PetscInt,PetscScalar *,void *),void **,Vec,const PetscReal [],PetscReal *);
277: PETSC_INTERN PetscErrorCode DMComputeL2FieldDiff_Plex(DM,PetscReal,PetscErrorCode(**)(PetscInt,PetscReal,const PetscReal[],PetscInt,PetscScalar *,void *),void **,Vec,PetscReal *);
278: PETSC_INTERN PetscErrorCode DMLocatePoints_Plex(DM, Vec, DMPointLocationType, PetscSF);
280: PETSC_INTERN PetscErrorCode DMPlexBuildFromCellList_Internal(DM, PetscInt, PetscInt, PetscInt, PetscInt, const int[], PetscBool);
281: PETSC_INTERN PetscErrorCode DMPlexBuildFromCellList_Parallel_Internal(DM, PetscInt, PetscInt, PetscInt, PetscInt, const int[], PetscBool, PetscSF *);
282: PETSC_INTERN PetscErrorCode DMPlexBuildCoordinates_Internal(DM, PetscInt, PetscInt, PetscInt, const double[]);
283: PETSC_INTERN PetscErrorCode DMPlexBuildCoordinates_Parallel_Internal(DM, PetscInt, PetscInt, PetscInt, PetscSF, const PetscReal[]);
284: PETSC_INTERN PetscErrorCode DMPlexLoadLabels_HDF5_Internal(DM, PetscViewer);
285: PETSC_INTERN PetscErrorCode DMPlexView_HDF5_Internal(DM, PetscViewer);
286: PETSC_INTERN PetscErrorCode DMPlexLoad_HDF5_Internal(DM, PetscViewer);
287: PETSC_INTERN PetscErrorCode DMPlexLoad_HDF5_Xdmf_Internal(DM, PetscViewer);
288: PETSC_INTERN PetscErrorCode VecView_Plex_HDF5_Internal(Vec, PetscViewer);
289: PETSC_INTERN PetscErrorCode VecView_Plex_HDF5_Native_Internal(Vec, PetscViewer);
290: PETSC_INTERN PetscErrorCode VecView_Plex_Local_HDF5_Internal(Vec, PetscViewer);
291: PETSC_INTERN PetscErrorCode VecLoad_Plex_HDF5_Internal(Vec, PetscViewer);
292: PETSC_INTERN PetscErrorCode VecLoad_Plex_HDF5_Native_Internal(Vec, PetscViewer);
293: /* TODO Make these INTERN */
294: PETSC_EXTERN PetscErrorCode DMPlexView_ExodusII_Internal(DM, int, PetscInt);
295: PETSC_EXTERN PetscErrorCode VecViewPlex_ExodusII_Nodal_Internal(Vec, int, int);
296: PETSC_EXTERN PetscErrorCode VecLoadPlex_ExodusII_Nodal_Internal(Vec, int, int);
297: PETSC_EXTERN PetscErrorCode VecViewPlex_ExodusII_Zonal_Internal(Vec, int, int);
298: PETSC_EXTERN PetscErrorCode VecLoadPlex_ExodusII_Zonal_Internal(Vec, int, int);
299: PETSC_INTERN PetscErrorCode DMPlexVTKGetCellType_Internal(DM,PetscInt,PetscInt,PetscInt*);
300: PETSC_INTERN PetscErrorCode DMPlexGetAdjacency_Internal(DM,PetscInt,PetscBool,PetscBool,PetscBool,PetscInt*,PetscInt*[]);
301: PETSC_INTERN PetscErrorCode DMPlexGetFaces_Internal(DM,PetscInt,PetscInt,PetscInt*,PetscInt*,const PetscInt*[]);
302: PETSC_INTERN PetscErrorCode DMPlexGetRawFaces_Internal(DM,PetscInt,PetscInt,const PetscInt[], PetscInt*,PetscInt*,const PetscInt*[]);
303: PETSC_INTERN PetscErrorCode DMPlexRestoreFaces_Internal(DM,PetscInt,PetscInt,PetscInt*,PetscInt*,const PetscInt*[]);
304: PETSC_INTERN PetscErrorCode DMPlexRefineUniform_Internal(DM,CellRefiner,DM*);
305: PETSC_INTERN PetscErrorCode DMPlexGetCellRefiner_Internal(DM,CellRefiner*);
306: PETSC_INTERN PetscErrorCode CellRefinerGetAffineTransforms_Internal(CellRefiner, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[]);
307: PETSC_INTERN PetscErrorCode CellRefinerGetAffineFaceTransforms_Internal(CellRefiner, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[], PetscReal *[]);
308: PETSC_INTERN PetscErrorCode CellRefinerRestoreAffineTransforms_Internal(CellRefiner, PetscInt *, PetscReal *[], PetscReal *[], PetscReal *[]);
309: PETSC_INTERN PetscErrorCode CellRefinerInCellTest_Internal(CellRefiner, const PetscReal[], PetscBool *);
310: PETSC_INTERN PetscErrorCode DMPlexInvertCell_Internal(PetscInt, PetscInt, PetscInt[]);
311: PETSC_INTERN PetscErrorCode DMPlexVecSetFieldClosure_Internal(DM, PetscSection, Vec, PetscBool[], PetscInt, PetscInt, const PetscInt[], const PetscScalar[], InsertMode);
312: PETSC_INTERN PetscErrorCode DMPlexProjectConstraints_Internal(DM, Vec, Vec);
313: PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceTree_SetTree(DM, PetscSection, PetscInt[], PetscInt[]);
314: PETSC_EXTERN PetscErrorCode DMPlexCreateReferenceTree_Union(DM,DM,const char *,DM*);
315: PETSC_EXTERN PetscErrorCode DMPlexComputeInterpolatorTree(DM,DM,PetscSF,PetscInt *,Mat);
316: PETSC_EXTERN PetscErrorCode DMPlexComputeInjectorTree(DM,DM,PetscSF,PetscInt *,Mat);
317: PETSC_EXTERN PetscErrorCode DMPlexAnchorsModifyMat(DM,PetscSection,PetscInt,PetscInt,const PetscInt[],const PetscInt ***,const PetscScalar[],PetscInt*,PetscInt*,PetscInt*[],PetscScalar*[],PetscInt[],PetscBool);
318: PETSC_EXTERN PetscErrorCode indicesPoint_private(PetscSection,PetscInt,PetscInt,PetscInt *,PetscBool,PetscInt,PetscInt []);
319: PETSC_EXTERN PetscErrorCode indicesPointFields_private(PetscSection,PetscInt,PetscInt,PetscInt [],PetscBool,PetscInt,PetscInt []);
320: PETSC_INTERN PetscErrorCode DMPlexLocatePoint_Internal(DM,PetscInt,const PetscScalar [],PetscInt,PetscInt *);
321: /* these two are PETSC_EXTERN just because of src/dm/impls/plex/examples/tests/ex18.c */
322: PETSC_EXTERN PetscErrorCode DMPlexOrientCell_Internal(DM,PetscInt,PetscInt,PetscBool);
323: PETSC_EXTERN PetscErrorCode DMPlexOrientInterface_Internal(DM);
325: PETSC_INTERN PetscErrorCode DMPlexCreateCellNumbering_Internal(DM, PetscBool, IS *);
326: PETSC_INTERN PetscErrorCode DMPlexCreateVertexNumbering_Internal(DM, PetscBool, IS *);
327: PETSC_INTERN PetscErrorCode DMPlexCreateNumbering_Internal(DM, PetscInt, PetscInt, PetscInt, PetscInt *, PetscSF, IS *);
328: PETSC_INTERN PetscErrorCode DMPlexRefine_Internal(DM, DMLabel, DM *);
329: PETSC_INTERN PetscErrorCode DMPlexCoarsen_Internal(DM, DMLabel, DM *);
330: PETSC_INTERN PetscErrorCode DMCreateMatrix_Plex(DM, Mat*);
332: PETSC_INTERN PetscErrorCode DMPlexGetOverlap_Plex(DM, PetscInt *);
334: /* invert dihedral symmetry: return a^-1,
335: * using the representation described in
336: * DMPlexGetConeOrientation() */
337: PETSC_STATIC_INLINE PetscInt DihedralInvert(PetscInt N, PetscInt a)
338: {
339: return (a <= 0) ? a : (N - a);
340: }
342: /* invert dihedral symmetry: return b * a,
343: * using the representation described in
344: * DMPlexGetConeOrientation() */
345: PETSC_STATIC_INLINE PetscInt DihedralCompose(PetscInt N, PetscInt a, PetscInt b)
346: {
347: if (!N) return 0;
348: return (a >= 0) ?
349: ((b >= 0) ? ((a + b) % N) : -(((a - b - 1) % N) + 1)) :
350: ((b >= 0) ? -(((N - b - a - 1) % N) + 1) : ((N + b - a) % N));
351: }
353: /* swap dihedral symmetries: return b * a^-1,
354: * using the representation described in
355: * DMPlexGetConeOrientation() */
356: PETSC_STATIC_INLINE PetscInt DihedralSwap(PetscInt N, PetscInt a, PetscInt b)
357: {
358: return DihedralCompose(N,DihedralInvert(N,a),b);
359: }
361: PETSC_EXTERN PetscErrorCode DMPlexComputeResidual_Internal(DM, IS , PetscReal, Vec, Vec, PetscReal, Vec, void *);
362: PETSC_EXTERN PetscErrorCode DMPlexComputeJacobian_Internal(DM, IS, PetscReal, PetscReal, Vec, Vec, Mat, Mat, void *);
363: PETSC_EXTERN PetscErrorCode DMPlexReconstructGradients_Internal(DM, PetscFV, PetscInt, PetscInt, Vec, Vec, Vec, Vec);
365: /* Matvec with A in row-major storage, x and y can be aliased */
366: PETSC_STATIC_INLINE void DMPlex_Mult2D_Internal(const PetscScalar A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
367: {
368: PetscScalar z[2];
369: z[0] = x[0]; z[1] = x[ldx];
370: y[0] = A[0]*z[0] + A[1]*z[1];
371: y[ldx] = A[2]*z[0] + A[3]*z[1];
372: (void)PetscLogFlops(6.0);
373: }
374: PETSC_STATIC_INLINE void DMPlex_Mult3D_Internal(const PetscScalar A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
375: {
376: PetscScalar z[3];
377: z[0] = x[0]; z[1] = x[ldx]; z[2] = x[ldx*2];
378: y[0] = A[0]*z[0] + A[1]*z[1] + A[2]*z[2];
379: y[ldx] = A[3]*z[0] + A[4]*z[1] + A[5]*z[2];
380: y[ldx*2] = A[6]*z[0] + A[7]*z[1] + A[8]*z[2];
381: (void)PetscLogFlops(15.0);
382: }
383: PETSC_STATIC_INLINE void DMPlex_MultTranspose2D_Internal(const PetscScalar A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
384: {
385: PetscScalar z[2];
386: z[0] = x[0]; z[1] = x[ldx];
387: y[0] = A[0]*z[0] + A[2]*z[1];
388: y[ldx] = A[1]*z[0] + A[3]*z[1];
389: (void)PetscLogFlops(6.0);
390: }
391: PETSC_STATIC_INLINE void DMPlex_MultTranspose3D_Internal(const PetscScalar A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
392: {
393: PetscScalar z[3];
394: z[0] = x[0]; z[1] = x[ldx]; z[2] = x[ldx*2];
395: y[0] = A[0]*z[0] + A[3]*z[1] + A[6]*z[2];
396: y[ldx] = A[1]*z[0] + A[4]*z[1] + A[7]*z[2];
397: y[ldx*2] = A[2]*z[0] + A[5]*z[1] + A[8]*z[2];
398: (void)PetscLogFlops(15.0);
399: }
400: PETSC_STATIC_INLINE void DMPlex_Mult2DReal_Internal(const PetscReal A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
401: {
402: PetscScalar z[2];
403: z[0] = x[0]; z[1] = x[ldx];
404: y[0] = A[0]*z[0] + A[1]*z[1];
405: y[ldx] = A[2]*z[0] + A[3]*z[1];
406: (void)PetscLogFlops(6.0);
407: }
408: PETSC_STATIC_INLINE void DMPlex_Mult3DReal_Internal(const PetscReal A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
409: {
410: PetscScalar z[3];
411: z[0] = x[0]; z[1] = x[ldx]; z[2] = x[ldx*2];
412: y[0] = A[0]*z[0] + A[1]*z[1] + A[2]*z[2];
413: y[ldx] = A[3]*z[0] + A[4]*z[1] + A[5]*z[2];
414: y[ldx*2] = A[6]*z[0] + A[7]*z[1] + A[8]*z[2];
415: (void)PetscLogFlops(15.0);
416: }
417: PETSC_STATIC_INLINE void DMPlex_MultTranspose2DReal_Internal(const PetscReal A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
418: {
419: PetscScalar z[2];
420: z[0] = x[0]; z[1] = x[ldx];
421: y[0] = A[0]*z[0] + A[2]*z[1];
422: y[ldx] = A[1]*z[0] + A[3]*z[1];
423: (void)PetscLogFlops(6.0);
424: }
425: PETSC_STATIC_INLINE void DMPlex_MultTranspose3DReal_Internal(const PetscReal A[], PetscInt ldx, const PetscScalar x[], PetscScalar y[])
426: {
427: PetscScalar z[3];
428: z[0] = x[0]; z[1] = x[ldx]; z[2] = x[ldx*2];
429: y[0] = A[0]*z[0] + A[3]*z[1] + A[6]*z[2];
430: y[ldx] = A[1]*z[0] + A[4]*z[1] + A[7]*z[2];
431: y[ldx*2] = A[2]*z[0] + A[5]*z[1] + A[8]*z[2];
432: (void)PetscLogFlops(15.0);
433: }
435: PETSC_STATIC_INLINE void DMPlex_MatMult2D_Internal(const PetscScalar A[], PetscInt n, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
436: {
437: PetscInt j;
438: for (j = 0; j < n; ++j) {
439: PetscScalar z[2];
440: z[0] = B[0+j]; z[1] = B[1*ldb+j];
441: DMPlex_Mult2D_Internal(A, 1, z, z);
442: C[0+j] = z[0]; C[1*ldb+j] = z[1];
443: }
444: (void)PetscLogFlops(8.0*n);
445: }
446: PETSC_STATIC_INLINE void DMPlex_MatMult3D_Internal(const PetscScalar A[], PetscInt n, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
447: {
448: PetscInt j;
449: for (j = 0; j < n; ++j) {
450: PetscScalar z[3];
451: z[0] = B[0+j]; z[1] = B[1*ldb+j]; z[2] = B[2*ldb+j];
452: DMPlex_Mult3D_Internal(A, 1, z, z);
453: C[0+j] = z[0]; C[1*ldb+j] = z[1]; C[2*ldb+j] = z[2];
454: }
455: (void)PetscLogFlops(8.0*n);
456: }
457: PETSC_STATIC_INLINE void DMPlex_MatMultTranspose2D_Internal(const PetscScalar A[], PetscInt n, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
458: {
459: PetscInt j;
460: for (j = 0; j < n; ++j) {
461: PetscScalar z[2];
462: z[0] = B[0+j]; z[1] = B[1*ldb+j];
463: DMPlex_MultTranspose2D_Internal(A, 1, z, z);
464: C[0+j] = z[0]; C[1*ldb+j] = z[1];
465: }
466: (void)PetscLogFlops(8.0*n);
467: }
468: PETSC_STATIC_INLINE void DMPlex_MatMultTranspose3D_Internal(const PetscScalar A[], PetscInt n, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
469: {
470: PetscInt j;
471: for (j = 0; j < n; ++j) {
472: PetscScalar z[3];
473: z[0] = B[0+j]; z[1] = B[1*ldb+j]; z[2] = B[2*ldb+j];
474: DMPlex_MultTranspose3D_Internal(A, 1, z, z);
475: C[0+j] = z[0]; C[1*ldb+j] = z[1]; C[2*ldb+j] = z[2];
476: }
477: (void)PetscLogFlops(8.0*n);
478: }
480: PETSC_STATIC_INLINE void DMPlex_MatMultLeft2D_Internal(const PetscScalar A[], PetscInt m, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
481: {
482: PetscInt j;
483: for (j = 0; j < m; ++j) {
484: DMPlex_MultTranspose2D_Internal(A, 1, &B[j*ldb], &C[j*ldb]);
485: }
486: (void)PetscLogFlops(8.0*m);
487: }
488: PETSC_STATIC_INLINE void DMPlex_MatMultLeft3D_Internal(const PetscScalar A[], PetscInt m, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
489: {
490: PetscInt j;
491: for (j = 0; j < m; ++j) {
492: DMPlex_MultTranspose3D_Internal(A, 1, &B[j*ldb], &C[j*ldb]);
493: }
494: (void)PetscLogFlops(8.0*m);
495: }
496: PETSC_STATIC_INLINE void DMPlex_MatMultTransposeLeft2D_Internal(const PetscScalar A[], PetscInt m, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
497: {
498: PetscInt j;
499: for (j = 0; j < m; ++j) {
500: DMPlex_Mult2D_Internal(A, 1, &B[j*ldb], &C[j*ldb]);
501: }
502: (void)PetscLogFlops(8.0*m);
503: }
504: PETSC_STATIC_INLINE void DMPlex_MatMultTransposeLeft3D_Internal(const PetscScalar A[], PetscInt m, PetscInt ldb, const PetscScalar B[], PetscScalar C[])
505: {
506: PetscInt j;
507: for (j = 0; j < m; ++j) {
508: DMPlex_Mult3D_Internal(A, 1, &B[j*ldb], &C[j*ldb]);
509: }
510: (void)PetscLogFlops(8.0*m);
511: }
513: PETSC_STATIC_INLINE void DMPlex_Transpose2D_Internal(PetscScalar A[])
514: {
515: PetscScalar tmp;
516: tmp = A[1]; A[1] = A[2]; A[2] = tmp;
517: }
518: PETSC_STATIC_INLINE void DMPlex_Transpose3D_Internal(PetscScalar A[])
519: {
520: PetscScalar tmp;
521: tmp = A[1]; A[1] = A[3]; A[3] = tmp;
522: tmp = A[2]; A[2] = A[6]; A[6] = tmp;
523: tmp = A[5]; A[5] = A[7]; A[7] = tmp;
524: }
526: PETSC_STATIC_INLINE void DMPlex_Invert2D_Internal(PetscReal invJ[], PetscReal J[], PetscReal detJ)
527: {
528: const PetscReal invDet = 1.0/detJ;
530: invJ[0] = invDet*J[3];
531: invJ[1] = -invDet*J[1];
532: invJ[2] = -invDet*J[2];
533: invJ[3] = invDet*J[0];
534: (void)PetscLogFlops(5.0);
535: }
537: PETSC_STATIC_INLINE void DMPlex_Invert3D_Internal(PetscReal invJ[], PetscReal J[], PetscReal detJ)
538: {
539: const PetscReal invDet = 1.0/detJ;
541: invJ[0*3+0] = invDet*(J[1*3+1]*J[2*3+2] - J[1*3+2]*J[2*3+1]);
542: invJ[0*3+1] = invDet*(J[0*3+2]*J[2*3+1] - J[0*3+1]*J[2*3+2]);
543: invJ[0*3+2] = invDet*(J[0*3+1]*J[1*3+2] - J[0*3+2]*J[1*3+1]);
544: invJ[1*3+0] = invDet*(J[1*3+2]*J[2*3+0] - J[1*3+0]*J[2*3+2]);
545: invJ[1*3+1] = invDet*(J[0*3+0]*J[2*3+2] - J[0*3+2]*J[2*3+0]);
546: invJ[1*3+2] = invDet*(J[0*3+2]*J[1*3+0] - J[0*3+0]*J[1*3+2]);
547: invJ[2*3+0] = invDet*(J[1*3+0]*J[2*3+1] - J[1*3+1]*J[2*3+0]);
548: invJ[2*3+1] = invDet*(J[0*3+1]*J[2*3+0] - J[0*3+0]*J[2*3+1]);
549: invJ[2*3+2] = invDet*(J[0*3+0]*J[1*3+1] - J[0*3+1]*J[1*3+0]);
550: (void)PetscLogFlops(37.0);
551: }
553: PETSC_STATIC_INLINE void DMPlex_Det2D_Internal(PetscReal *detJ, const PetscReal J[])
554: {
555: *detJ = J[0]*J[3] - J[1]*J[2];
556: (void)PetscLogFlops(3.0);
557: }
559: PETSC_STATIC_INLINE void DMPlex_Det3D_Internal(PetscReal *detJ, const PetscReal J[])
560: {
561: *detJ = (J[0*3+0]*(J[1*3+1]*J[2*3+2] - J[1*3+2]*J[2*3+1]) +
562: J[0*3+1]*(J[1*3+2]*J[2*3+0] - J[1*3+0]*J[2*3+2]) +
563: J[0*3+2]*(J[1*3+0]*J[2*3+1] - J[1*3+1]*J[2*3+0]));
564: (void)PetscLogFlops(12.0);
565: }
567: PETSC_STATIC_INLINE void DMPlex_Det2D_Scalar_Internal(PetscReal *detJ, const PetscScalar J[])
568: {
569: *detJ = PetscRealPart(J[0])*PetscRealPart(J[3]) - PetscRealPart(J[1])*PetscRealPart(J[2]);
570: (void)PetscLogFlops(3.0);
571: }
573: PETSC_STATIC_INLINE void DMPlex_Det3D_Scalar_Internal(PetscReal *detJ, const PetscScalar J[])
574: {
575: *detJ = (PetscRealPart(J[0*3+0])*(PetscRealPart(J[1*3+1])*PetscRealPart(J[2*3+2]) - PetscRealPart(J[1*3+2])*PetscRealPart(J[2*3+1])) +
576: PetscRealPart(J[0*3+1])*(PetscRealPart(J[1*3+2])*PetscRealPart(J[2*3+0]) - PetscRealPart(J[1*3+0])*PetscRealPart(J[2*3+2])) +
577: PetscRealPart(J[0*3+2])*(PetscRealPart(J[1*3+0])*PetscRealPart(J[2*3+1]) - PetscRealPart(J[1*3+1])*PetscRealPart(J[2*3+0])));
578: (void)PetscLogFlops(12.0);
579: }
581: PETSC_STATIC_INLINE void DMPlex_WaxpyD_Internal(PetscInt dim, PetscReal a, const PetscReal *x, const PetscReal *y, PetscReal *w) {PetscInt d; for (d = 0; d < dim; ++d) w[d] = a*x[d] + y[d];}
583: PETSC_STATIC_INLINE PetscReal DMPlex_DotD_Internal(PetscInt dim, const PetscScalar *x, const PetscReal *y) {PetscReal sum = 0.0; PetscInt d; for (d = 0; d < dim; ++d) sum += PetscRealPart(x[d])*y[d]; return sum;}
585: PETSC_STATIC_INLINE PetscReal DMPlex_DotRealD_Internal(PetscInt dim, const PetscReal *x, const PetscReal *y) {PetscReal sum = 0.0; PetscInt d; for (d = 0; d < dim; ++d) sum += x[d]*y[d]; return sum;}
587: PETSC_STATIC_INLINE PetscReal DMPlex_NormD_Internal(PetscInt dim, const PetscReal *x) {PetscReal sum = 0.0; PetscInt d; for (d = 0; d < dim; ++d) sum += x[d]*x[d]; return PetscSqrtReal(sum);}
589: PETSC_STATIC_INLINE PetscErrorCode DMPlexFixFaceOrientations_Translate_Private(PetscInt ornt, PetscInt *start, PetscBool *reverse)
590: {
592: *reverse = (ornt < 0) ? PETSC_TRUE : PETSC_FALSE;
593: *start = *reverse ? -(ornt+1) : ornt;
594: return(0);
595: }
597: PETSC_STATIC_INLINE PetscErrorCode DMPlexFixFaceOrientations_Combine_Private(PetscInt coneSize, PetscInt origStart, PetscBool origReverse, PetscInt rotateStart, PetscBool rotateReverse, PetscInt *newStart, PetscBool *newReverse)
598: {
600: *newReverse = (origReverse == rotateReverse) ? PETSC_FALSE : PETSC_TRUE;
601: *newStart = rotateReverse ? (coneSize + rotateStart - origStart) : (coneSize + origStart - rotateStart);
602: *newStart %= coneSize;
603: return(0);
604: }
606: PETSC_STATIC_INLINE PetscErrorCode DMPlexFixFaceOrientations_TranslateBack_Private(PetscInt coneSize, PetscInt start, PetscBool reverse, PetscInt *ornt)
607: {
609: if (coneSize < 3) {
610: /* edges just get flipped if start == 1 regardless direction */
611: *ornt = start ? -2 : 0;
612: } else {
613: *ornt = reverse ? -(start+1) : start;
614: }
615: return(0);
616: }
618: PETSC_STATIC_INLINE PetscErrorCode DMPlexFixFaceOrientations_Permute_Private(PetscInt n, const PetscInt arr[], PetscInt start, PetscBool reverse, PetscInt newarr[])
619: {
620: PetscInt i;
623: if (reverse) {for (i=0; i<n; i++) newarr[i] = arr[(n+start-i)%n];}
624: else {for (i=0; i<n; i++) newarr[i] = arr[(start+i)%n];}
625: return(0);
626: }
628: PETSC_INTERN PetscErrorCode DMPlexGetPointDualSpaceFEM(DM,PetscInt,PetscInt,PetscDualSpace *);
629: PETSC_INTERN PetscErrorCode DMPlexGetIndicesPoint_Internal(PetscSection,PetscInt,PetscInt,PetscInt *,PetscBool,const PetscInt[],const PetscInt[],PetscInt[]);
630: PETSC_INTERN PetscErrorCode DMPlexGetIndicesPointFields_Internal(PetscSection,PetscInt,PetscInt,PetscInt[],PetscBool,const PetscInt***,PetscInt,const PetscInt[],PetscInt[]);
631: PETSC_INTERN PetscErrorCode DMPlexGetCompressedClosure(DM, PetscSection, PetscInt, PetscInt *, PetscInt **, PetscSection *, IS *, const PetscInt **);
632: PETSC_INTERN PetscErrorCode DMPlexRestoreCompressedClosure(DM, PetscSection, PetscInt, PetscInt *, PetscInt **, PetscSection *, IS *, const PetscInt **);
634: PETSC_EXTERN PetscErrorCode DMSNESGetFEGeom(DMField, IS, PetscQuadrature, PetscBool, PetscFEGeom **);
635: PETSC_EXTERN PetscErrorCode DMSNESRestoreFEGeom(DMField, IS, PetscQuadrature, PetscBool, PetscFEGeom **);
636: PETSC_EXTERN PetscErrorCode DMPlexComputeResidual_Patch_Internal(DM, PetscSection, IS, PetscReal, Vec, Vec, Vec, void *);
637: PETSC_EXTERN PetscErrorCode DMPlexComputeJacobian_Patch_Internal(DM, PetscSection, PetscSection, IS, PetscReal, PetscReal, Vec, Vec, Mat, Mat, void *);
638: PETSC_INTERN PetscErrorCode DMCreateSubDomainDM_Plex(DM,DMLabel,PetscInt,IS*,DM*);
639: PETSC_INTERN PetscErrorCode DMPlexBasisTransformPoint_Internal(DM, DM, Vec, PetscInt, PetscBool[], PetscBool, PetscScalar *);
640: PETSC_EXTERN PetscErrorCode DMPlexBasisTransformPointTensor_Internal(DM, DM, Vec, PetscInt, PetscBool, PetscInt, PetscScalar *);
641: PETSC_INTERN PetscErrorCode DMPlexBasisTransformApplyReal_Internal(DM, const PetscReal[], PetscBool, PetscInt, const PetscReal *, PetscReal *, void *);
642: PETSC_INTERN PetscErrorCode DMPlexBasisTransformApply_Internal(DM, const PetscReal[], PetscBool, PetscInt, const PetscScalar *, PetscScalar *, void *);
643: PETSC_INTERN PetscErrorCode DMCreateNeumannOverlap_Plex(DM, IS*, Mat*, PetscErrorCode (**)(Mat, PetscReal, Vec, Vec, PetscReal, IS, void*), void **);
645: #endif /* _PLEXIMPL_H */