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Core.hpp
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1/** \file Core.hpp
2 * \brief Core interface class for user interface
3 *
4 * Low level data structures not used directly by user
5 *
6 * FIXME It is a mess with names of core cpp files need better organization
7 *
8 */
9
10#ifndef __CORE_HPP__
11#define __CORE_HPP__
12
13namespace MoFEM {
14
15/**
16 * @brief Wrap MPI comminitactor such that is destroyed when is out of scope
17 *
18 */
19struct WrapMPIComm {
20 WrapMPIComm(MPI_Comm comm, bool petsc);
21 ~WrapMPIComm();
22
23 inline auto get_comm() { return duplicatedComm; }
24
25private:
26 MPI_Comm comm;
27 MPI_Comm duplicatedComm;
28 bool isPetscComm;
29};
30
31// This is to have obsolete back compatibility
32struct MeshsetsManager;
33
34template <int V> struct CoreValue {};
35
36template <int N> struct CoreTmp : public CoreTmp<N - 1> {
37
38 static constexpr const int value = N;
39 const int getValue() const { return value; }
40
41 boost::shared_ptr<RefEntityTmp<0>> virtual make_shared_ref_entity(
42 const EntityHandle ent);
43
44 using CoreTmp<N - 1>::CoreTmp;
45
46 /**
47 * Construct core database
48 */
49 CoreTmp(moab::Interface &moab, ///< MoAB interface
50 MPI_Comm comm = PETSC_COMM_WORLD, ///< MPI communicator
51 const int verbose = VERBOSE ///< Verbosity level
52
53 );
54
55 MoFEMErrorCode set_moab_interface(moab::Interface &new_moab, int verb);
56};
57
58template <int N> constexpr const int CoreTmp<N>::value;
59
60/** \brief Core (interface) class
61* \ingroup mofem
62* \nosubgrouping
63
64This is the implementation of abstract MoFEM::Interface class. Similarly to the
65convention used in MoAB, we use small letters to name function of purely
66abstract classes. This is an exception used only here. For more details about
67naming functions see \ref coding_practice
68
69This class is not used directly by the user. For internal use only. It is
70database with basic functions to access data. Abstraction of this is MoFEM
71Interface structure.
72
73Such deign to hide complexities for users and allow low development
74without interfering with users modules programmer work.
75
76\todo Implement static functions for Initialization and Finalization of MoFEM.
77Those functions should keep all static variables and initialize/finalize other
78libs like PETSc. Moreover initialization functions should set error handlers,
79etc.
80
81*/
82template <> struct CoreTmp<0> : public Interface {
83
84 static constexpr int value = 0;
85 const int getValue() const { return value; }
86 RefEntityTmp<0> getRefEntity(const EntityHandle ent) {
87 return RefEntityTmp<0>(this->basicEntityDataPtr, ent);
88 }
89
90 virtual boost::shared_ptr<RefEntityTmp<0>>
91 make_shared_ref_entity(const EntityHandle ent);
92
93 /**
94 * Construct core database
95 */
96 CoreTmp(moab::Interface &moab, ///< MoAB interface
97 MPI_Comm comm = PETSC_COMM_WORLD, ///< MPI communicator
98 const int verbose = VERBOSE ///< Verbosity level
99
100 );
101
102 ~CoreTmp();
103
104 /** \name Global initialisation and finalisation */
105
106 /**@{*/
107
108 /**
109 * @brief Initializes the MoFEM database PETSc, MOAB and MPI.
110 *
111 * \note This function calls PetscInitialize, for more details see
112 * <http://www.mcs.anl.gov/petsc/petsc-current/docs/manualpages/Sys/PetscInitialize.html>
113 *
114 * Example:
115 * \code
116 *
117 * int main(int argc, char *argv[]) {
118 *
119 * // Initailise MoFEM and Petsc
120 * MoFEM::Core::Initialize(&argc, &argv, (char *)0, help);
121 *
122 * try {
123 *
124 * moab::Core mb_instance; // MoAB database
125 * moab::Interface &moab = mb_instance;
126 * MoFEM::Core core(moab); // MOFEM database
127 * MoFEM::CoreInterface &m_field = core;
128 *
129 * CHKERR foo(); // Call function
130 *
131 * }
132 * CATCH_ERRORS;
133 *
134 * return MoFEM::Core::Finalize();
135 *
136 * }
137 *
138 * \endcode
139 *
140 * @param argc count of number of command line arguments
141 * @param args the command line arguments
142 * @param file [optional] PETSc database file, also checks ~username/.petscrc
143 * * and .petscrc use NULL to not check for code specific file. Use *
144 * -skip_petscrc in the code specific file to skip the .petscrc files
145 * @param help [optional] Help message to print, use NULL for no message
146 * @return MoFEMErrorCode
147 */
148 static MoFEMErrorCode Initialize(int *argc, char ***args, const char file[],
149 const char help[]);
150
151 /**
152 * @brief Checks for options to be called at the conclusion of the program.
153 *
154 * MPI_Finalize() is called only if the user had not called MPI_Init() before
155 * calling Initialize.
156 *
157 * \note This function calls PetscInitialize, for more details see
158 * <http://www.mcs.anl.gov/petsc/petsc-current/docs/manualpages/Sys/PetscFinalize.html>
159 *
160 * @return MoFEMErrorCode
161 */
162 static MoFEMErrorCode Finalize();
163
164 /**@}*/
165
166 /**@{*/
167
168 /** \name Static functions */
169
170 static void setRefEntBasicDataPtr(MoFEM::Interface &m_field,
171 boost::shared_ptr<BasicEntityData> &ptr);
172
173 static boost::shared_ptr<RefEntityTmp<0>>
174 makeSharedRefEntity(MoFEM::Interface &m_field, const EntityHandle ent);
175
176 /**@}&*/
177
178 /** \name Assessing interfaces **/
179
180 /**@{*/
181
182 /**
183 * \brief Getting interface of core database
184 * @param uuid unique ID of interface
185 * @param iface returned pointer to interface
186 * @return error code
187 */
188 MoFEMErrorCode query_interface(boost::typeindex::type_index type_index,
189 UnknownInterface **iface) const;
190
191 /**@}*/
192
193 /** \name Get tag handles to data on the mesh */
194
195 /**@{*/
196
197 inline Tag get_th_RefParentHandle() const { return th_RefParentHandle; }
198 inline Tag get_th_RefBitLevel() const { return th_RefBitLevel; }
199 inline Tag get_th_RefBitEdge() const { return th_RefBitEdge; }
200
201 /**@}*/
202
203 /** \name Auxiliary data and functions */
204
205 /**@{*/
206
207 /**
208 * Is used to check consistency. I n future properly this will be removed and
209 * replaced by other solution. It is only for internal use.
210 */
211 enum SemaphoresBuildMofem {
212 BUILD_FIELD = 1 << 0,
213 BUILD_FE = 1 << 1,
214 BUILD_ADJ = 1 << 2,
215 BUILD_PROBLEM = 1 << 3,
216 PARTITION_PROBLEM = 1 << 4,
217 PARTITION_FE = 1 << 5,
218 PARTITION_GHOST_DOFS = 1 << 6,
219 PARTITION_MESH = 1 << 7
220 };
221
222 /**
223 * \brief Get flags/semaphores for different stages
224 */
225 inline int &getBuildMoFEM() const { return *buildMoFEM; }
226
227 /**
228 * \brief add prim element
229 *
230 * FIXME: This is dirt solution, need to be fixed
231 *
232 * @param prism prim handle
233 * @param verb verbosity level
234 * @return error code
235 */
236 MoFEMErrorCode addPrismToDatabase(const EntityHandle prism,
237 int verb = DEFAULT_VERBOSITY);
238
239 /**@}*/
240
241protected:
242 /**
243 * Construct core database
244 */
245 template <int V>
246 CoreTmp(moab::Interface &moab, ///< MoAB interface
247 MPI_Comm comm, ///< MPI communicator
248 const int verbose, CoreValue<V>);
249
250 MoFEMErrorCode coreGenericConstructor(moab::Interface &moab, MPI_Comm comm,
251 const int verbose);
252
253 /** \name Tags to data on mesh and entities */
254
255 /**@{*/
256
257 Tag th_Part; ///< Tag for partition number
258 Tag th_RefParentHandle, th_RefBitLevel, th_RefBitLevel_Mask, th_RefBitEdge,
259 th_RefFEMeshset;
260 Tag th_FieldId, th_FieldName, th_FieldName_DataNamePrefix, th_FieldSpace,
261 th_FieldBase;
262 Tag th_FEId, th_FEName;
263 Tag th_FEIdCol, th_FEIdRow, th_FEIdData;
264 Tag th_ProblemId, th_ProblemName, th_ProblemFEId;
265 Tag th_ProblemNbDofsRow, th_ProblemNbDofsCol;
266 Tag th_ProblemLocalNbDofRow, th_ProblemGhostNbDofRow;
267 Tag th_ProblemLocalNbDofCol, th_ProblemGhostNbDofCol;
268 Tag th_ProblemShift;
269 Tag th_ElemType; ///< Needed for VTK files
270 Tag th_MoFEMBuild; ///< Internal use storing state, used to detect error and
271 ///< inconsistencies
272
273 /**
274 * @return pointer to BasicEntityData structure
275 *
276 * BasicEntityData is structure which every BasicEntity have. It keeps data
277 * about tags to handles on the mesh, in particular tag to BitRefLevel and
278 * tag with handle to parent.
279 *
280 */
281 boost::shared_ptr<BasicEntityData> basicEntityDataPtr;
282
283 /**
284 * \brief Get pointer to basic entity data.
285 *
286 * This structure keeps data like tags handlers and other data used to
287 * construct mofem entities, dofs and finite elements.
288 *
289 */
290 boost::shared_ptr<BasicEntityData> &get_basic_entity_data_ptr() {
291 return basicEntityDataPtr;
292 }
293
294 /**@}*/
295
296 /** \name Multi-Indices accessing data on the mesh */
297
298 /**@{*/
299
300 RefEntity_multiIndex refinedEntities; ///< refined entities
301 RefElement_multiIndex refinedFiniteElements; ///< refined elements
302
303 Field_multiIndex fIelds; ///< fields
304 FieldEntity_multiIndex entsFields; ///< entities on fields
305 DofEntity_multiIndex dofsField; ///< dofs on fields
306
307 FiniteElement_multiIndex finiteElements; ///< finite elements
308 EntFiniteElement_multiIndex entsFiniteElements; ///< finite element entities
309
310 FieldEntityEntFiniteElementAdjacencyMap_multiIndex
311 entFEAdjacencies; ///< adjacencies of elements to dofs
312
313 Problem_multiIndex pRoblems; ///< problems multi-index
314
315 /**@}*/
316
317 /** \name Get moab database */
318
319 /**@{*/
320
321 std::reference_wrapper<moab::Interface> moab; ///< moab database
322 inline moab::Interface &get_moab() { return moab; }
323 inline const moab::Interface &get_moab() const { return moab; }
324
325 MoFEMErrorCode set_moab_interface(moab::Interface &new_moab,
326 int verb = VERBOSE);
327
328 MoFEMErrorCode setMoabInterface(moab::Interface &new_moab,
329 int verb = VERBOSE);
330
331 /**@}*/
332
333 /** \name Check database consistency */
334
335 /**@{*/
336
337 MoFEMErrorCode
338 check_number_of_ents_in_ents_field(const std::string &name) const;
339 MoFEMErrorCode check_number_of_ents_in_ents_field() const;
340 MoFEMErrorCode
341 check_number_of_ents_in_ents_finite_element(const std::string &name) const;
342 MoFEMErrorCode check_number_of_ents_in_ents_finite_element() const;
343
344 /**@}*/
345
346 /** \name Clear database */
347
348 /**@{*/
349
350 MoFEMErrorCode clear_database(int verb = DEFAULT_VERBOSITY);
351 MoFEMErrorCode rebuild_database(int verb = DEFAULT_VERBOSITY);
352
353 /**@}*/
354
355 /** \name Getting access to meshset manager */
356
357 /**@{*/
358
359 MeshsetsManager *get_meshsets_manager_ptr();
360 const MeshsetsManager *get_meshsets_manager_ptr() const;
361 inline MeshsetsManager &get_meshsets_manager() {
362 return *get_meshsets_manager_ptr();
363 }
364 inline const MeshsetsManager &get_meshsets_manager() const {
365 return *get_meshsets_manager_ptr();
366 }
367
368 /**@}*/
369
370 /** \name Remove and delete entities */
371
372 /**@{*/
373
374 MoFEMErrorCode remove_parents_by_ents(const Range &ents,
375 int verb = DEFAULT_VERBOSITY);
376
377 MoFEMErrorCode remove_parents_by_bit_ref(const BitRefLevel bit,
378 const BitRefLevel mask,
379 int verb = DEFAULT_VERBOSITY);
380
381 MoFEMErrorCode remove_parents_by_parents(const Range &ents,
382 int verb = DEFAULT_VERBOSITY);
383
384 MoFEMErrorCode remove_ents(const Range ents, int verb = DEFAULT_VERBOSITY);
385
386 MoFEMErrorCode remove_ents_by_bit_ref(const BitRefLevel bit,
387 const BitRefLevel mask,
388 int verb = DEFAULT_VERBOSITY);
389 MoFEMErrorCode delete_ents_by_bit_ref(const BitRefLevel bit,
390 const BitRefLevel mask,
391 const bool remove_parent = false,
392 int verb = DEFAULT_VERBOSITY,
393 MoFEMTypes mf = MF_ZERO);
394 /**@}*/
395
396 /** \name Fields */
397
398 /**@{*/
399
400 /**
401 * \brief Add filed
402 * @param name Field name
403 * @param space Space L2,H1,Hdiv,Hcurl
404 * @param base Approximation base AINSWORTH_LEGENDRE_BASE,
405 AINSWORTH_BERNSTEIN_BEZIER_BASE ...
406 * @param nb_coefficients Number of field coefficients
407 * @param tag_type Tag type, MB_TAG_DENSE or MB_TAG_SPARSE (default)
408 * @param bh Control behavior, if MF_EXCL throws error if exist
409 * @param verb Verbosity level
410 * @return Return error code
411
412 TODO: \todo MB_TAG_DENSE will not work properly in general case. It is need to
413 separate field tags for each entity separately. That will allow for HO orders
414 but homogenous approx. order on each entity. Need some discussion what is
415 optimal solution. MB_TAG_SPARSE gives flexibility, but it not memory
416 efficient. MB_TAG_DENSE uses memory more efficient and in principle allow for
417 better efficiency if properly utilized.
418
419
420 FIXME: \bug Need to resolve problem of dense tags at this stage of development
421 will make only problems
422
423 */
424 virtual MoFEMErrorCode
425 add_field(const std::string &name, const FieldSpace space,
426 const FieldApproximationBase base,
427 const FieldCoefficientsNumber nb_coefficients,
428 const TagType tag_type = MB_TAG_SPARSE,
429 const enum MoFEMTypes bh = MF_EXCL, int verb = DEFAULT_VERBOSITY);
430
431 /**
432 * @brief Delete field
433 *
434 * @param name field name
435 * @param verb verbosity level
436 * @return error code
437 */
438 MoFEMErrorCode delete_field(const std::string name,
439 int verb = DEFAULT_VERBOSITY);
440
441 /**
442 * @brief Template for add_field
443 *
444 * @tparam CoreN
445 * @param name
446 * @param space
447 * @param base
448 * @param nb_coefficients
449 * @param tag_type
450 * @param bh
451 * @param verb
452 * @return MoFEMErrorCode
453 */
454 MoFEMErrorCode addField(const std::string &name, const FieldSpace space,
455 const FieldApproximationBase base,
456 const FieldCoefficientsNumber nb_coefficients,
457 const TagType tag_type, const enum MoFEMTypes bh,
458 int verb);
459
460 MoFEMErrorCode addEntsToFieldByDim(const Range &ents, const int dim,
461 const std::string &name,
462 int verb = DEFAULT_VERBOSITY);
463 MoFEMErrorCode add_ents_to_field_by_dim(const Range &ents, const int dim,
464 const std::string &name,
465 int verb = DEFAULT_VERBOSITY);
466 MoFEMErrorCode add_ents_to_field_by_type(const Range &ents,
467 const EntityType type,
468 const std::string &name,
469 int verb = DEFAULT_VERBOSITY);
470 MoFEMErrorCode add_ents_to_field_by_dim(const EntityHandle meshset,
471 const int dim,
472 const std::string &name,
473 const bool recursive = true,
474 int verb = DEFAULT_VERBOSITY);
475 MoFEMErrorCode add_ents_to_field_by_type(const EntityHandle meshset,
476 const EntityType type,
477 const std::string &name,
478 const bool recursive = true,
479 int verb = DEFAULT_VERBOSITY);
480
481 MoFEMErrorCode create_vertices_and_add_to_field(const std::string name,
482 const double coords[],
483 int size,
484 int verb = DEFAULT_VERBOSITY);
485
486 /// \name Set approximation order
487
488 MoFEMErrorCode setFieldOrder(const Range &ents, const BitFieldId id,
489 const ApproximationOrder order, int ver);
490
491 MoFEMErrorCode setFieldOrderImpl(boost::shared_ptr<Field> field_ptr,
492 const Range &ents,
493 const ApproximationOrder order, int verb);
494
495 MoFEMErrorCode set_field_order(const Range &ents, const BitFieldId id,
496 const ApproximationOrder order,
497 int verb = DEFAULT_VERBOSITY);
498
499 MoFEMErrorCode set_field_order(const EntityHandle meshset,
500 const EntityType type, const BitFieldId id,
501 const ApproximationOrder order,
502 int verb = DEFAULT_VERBOSITY);
503 MoFEMErrorCode set_field_order(const Range &ents, const std::string &name,
504 const ApproximationOrder order,
505 int verb = DEFAULT_VERBOSITY);
506 MoFEMErrorCode set_field_order(const EntityHandle meshset,
507 const EntityType type, const std::string &name,
508 const ApproximationOrder order,
509 int verb = DEFAULT_VERBOSITY);
510 MoFEMErrorCode set_field_order_by_entity_type_and_bit_ref(
511 const BitRefLevel &bit, const BitRefLevel &mask, const EntityType type,
512 const BitFieldId id, const ApproximationOrder order,
513 int verb = DEFAULT_VERBOSITY);
514 MoFEMErrorCode set_field_order_by_entity_type_and_bit_ref(
515 const BitRefLevel &bit, const BitRefLevel &mask, const EntityType type,
516 const std::string &name, const ApproximationOrder order,
517 int verb = DEFAULT_VERBOSITY);
518
519 /// \name Build fields
520
521 MoFEMErrorCode
522 buildFieldForNoFieldImpl(boost::shared_ptr<Field> field_ptr,
523 std::map<EntityType, int> &dof_counter, int verb);
524
525 MoFEMErrorCode buildFieldForNoField(const BitFieldId id,
526 std::map<EntityType, int> &dof_counter,
527 int verb = DEFAULT_VERBOSITY);
528
529 MoFEMErrorCode
530 buildFieldForL2H1HcurlHdiv(const BitFieldId id,
531 std::map<EntityType, int> &dof_counter,
532 std::map<EntityType, int> &inactive_dof_counter,
533 int verb = DEFAULT_VERBOSITY);
534
535 MoFEMErrorCode buildField(const boost::shared_ptr<Field> &field,
536 int verb = DEFAULT_VERBOSITY);
537
538 MoFEMErrorCode build_fields(int verb = DEFAULT_VERBOSITY);
539
540 MoFEMErrorCode build_field(const std::string field_name,
541 int verb = DEFAULT_VERBOSITY);
542
543 /// \name Clear DOFs
544 MoFEMErrorCode clear_inactive_dofs(int verb = DEFAULT_VERBOSITY);
545 MoFEMErrorCode clear_dofs_fields_by_bit_ref(const BitRefLevel bit,
546 const BitRefLevel mask,
547 int verb = DEFAULT_VERBOSITY);
548 MoFEMErrorCode clear_dofs_fields(const Range ents,
549 int verb = DEFAULT_VERBOSITY);
550 MoFEMErrorCode clear_dofs_fields(const std::string name, const Range ents,
551 int verb = DEFAULT_VERBOSITY);
552
553 /// \name Clear ENTs
554 MoFEMErrorCode clear_ents_fields_by_bit_ref(const BitRefLevel bit,
555 const BitRefLevel mask,
556 int verb = DEFAULT_VERBOSITY);
557 MoFEMErrorCode clear_ents_fields(const Range ents,
558 int verb = DEFAULT_VERBOSITY);
559 MoFEMErrorCode clear_ents_fields(const std::string name, const Range ents,
560 int verb = DEFAULT_VERBOSITY);
561
562 /// \name Remove field entities
563
564 MoFEMErrorCode
565 remove_ents_from_field_by_bit_ref(const BitRefLevel bit,
566 const BitRefLevel mask,
567 int verb = DEFAULT_VERBOSITY);
568 MoFEMErrorCode remove_ents_from_field(const std::string name,
569 const EntityHandle meshset,
570 const EntityType type,
571 int verb = DEFAULT_VERBOSITY);
572 MoFEMErrorCode remove_ents_from_field(const std::string name,
573 const Range ents,
574 int verb = DEFAULT_VERBOSITY);
575 MoFEMErrorCode remove_ents_from_field(const Range ents,
576 int verb = DEFAULT_VERBOSITY);
577
578 /// \name Other auxiliary functions for fields
579
580 MoFEMErrorCode list_dofs_by_field_name(const std::string &name) const;
581 MoFEMErrorCode list_fields() const;
582 BitFieldId get_field_id(const std::string &name) const;
583 FieldBitNumber get_field_bit_number(const std::string name) const;
584 std::string get_field_name(const BitFieldId id) const;
585 EntityHandle get_field_meshset(const BitFieldId id) const;
586 EntityHandle get_field_meshset(const std::string name) const;
587 MoFEMErrorCode get_field_entities_by_dimension(const std::string name,
588 int dim, Range &ents) const;
589 MoFEMErrorCode get_field_entities_by_type(const std::string name,
590 EntityType type, Range &ents) const;
591 MoFEMErrorCode get_field_entities_by_handle(const std::string name,
592 Range &ents) const;
593 bool check_field(const std::string &name) const;
594
595 const Field *get_field_structure(const std::string &name,
596 enum MoFEMTypes bh = MF_EXIST) const;
597
598 /**@}*/
599
600 /** \name Finite elements */
601
602 /**@{*/
603
604 const FiniteElement *
605 get_finite_element_structure(const std::string &name,
606 enum MoFEMTypes bh = MF_EXCL) const;
607
608 bool check_finite_element(const std::string &name) const;
609
610 MoFEMErrorCode add_finite_element(const std::string &fe_name,
611 enum MoFEMTypes bh = MF_EXCL,
612 int verb = DEFAULT_VERBOSITY);
613 MoFEMErrorCode
614 modify_finite_element_adjacency_table(const std::string &fe_name,
615 const EntityType type,
616 ElementAdjacencyFunct function);
617 MoFEMErrorCode
618 modify_finite_element_add_field_data(const std::string &fe_name,
619 const std::string name_filed);
620 MoFEMErrorCode
621 modify_finite_element_add_field_row(const std::string &fe_name,
622 const std::string name_row);
623 MoFEMErrorCode
624 modify_finite_element_add_field_col(const std::string &fe_name,
625 const std::string name_col);
626 MoFEMErrorCode
627 modify_finite_element_off_field_data(const std::string &fe_name,
628 const std::string name_filed);
629 MoFEMErrorCode
630 modify_finite_element_off_field_row(const std::string &fe_name,
631 const std::string name_row);
632 MoFEMErrorCode
633 modify_finite_element_off_field_col(const std::string &fe_name,
634 const std::string name_col);
635 MoFEMErrorCode add_ents_to_finite_element_by_type(
636 const EntityHandle meshset, const EntityType type,
637 const std::string &name, const bool recursive = true);
638 MoFEMErrorCode add_ents_to_finite_element_by_dim(const EntityHandle meshset,
639 const int dim,
640 const std::string &name,
641 const bool recursive = true);
642 MoFEMErrorCode add_ents_to_finite_element_by_type(const Range &ents,
643 const EntityType type,
644 const std::string &name);
645 MoFEMErrorCode add_ents_to_finite_element_by_dim(const Range &ents,
646 const int dim,
647 const std::string &name);
648 MoFEMErrorCode add_ents_to_finite_element_by_bit_ref(
649 const BitRefLevel &bit, const BitRefLevel &mask, const std::string &name,
650 EntityType type, int verb = DEFAULT_VERBOSITY);
651 MoFEMErrorCode
652 add_ents_to_finite_element_by_MESHSET(const EntityHandle meshset,
653 const std::string &name,
654 const bool recursive = false);
655 DEPRECATED MoFEMErrorCode add_ents_to_finite_element_EntType_by_bit_ref(
656 const BitRefLevel &bit, const std::string &name, EntityType type,
657 int verb = DEFAULT_VERBOSITY);
658 DEPRECATED MoFEMErrorCode add_ents_to_finite_element_EntType_by_bit_ref(
659 const BitRefLevel &bit, const BitRefLevel &mask, const std::string &name,
660 EntityType type, int verb = DEFAULT_VERBOSITY);
661
662 MoFEMErrorCode
663 remove_ents_from_finite_element_by_bit_ref(const BitRefLevel bit,
664 const BitRefLevel mask,
665 int verb = DEFAULT_VERBOSITY);
666 MoFEMErrorCode remove_ents_from_finite_element(const std::string name,
667 const EntityHandle meshset,
668 const EntityType type,
669 int verb = DEFAULT_VERBOSITY);
670 MoFEMErrorCode remove_ents_from_finite_element(const std::string name,
671 const Range ents,
672 int verb = DEFAULT_VERBOSITY);
673 MoFEMErrorCode remove_ents_from_finite_element(const Range ents,
674 int verb = DEFAULT_VERBOSITY);
675 MoFEMErrorCode delete_finite_element(const std::string name,
676 int verb = DEFAULT_VERBOSITY);
677
678 // \name Other auxiliary functions for finite element
679
680 /**
681 * \brief Get field Id
682 * @param name field name
683 * @return field id
684 */
685 BitFEId getBitFEId(const std::string &fe_name) const;
686
687 /**
688 * \brief Get field name
689 * @param id field id
690 * @return field name
691 */
692 std::string getBitFEIdName(const BitFEId id) const;
693
694 EntityHandle get_finite_element_meshset(const BitFEId id) const;
695 EntityHandle get_finite_element_meshset(const std::string name) const;
696 MoFEMErrorCode
697 get_finite_element_entities_by_dimension(const std::string name, int dim,
698 Range &ents) const;
699 MoFEMErrorCode get_finite_element_entities_by_type(const std::string name,
700 EntityType type,
701 Range &ents) const;
702 MoFEMErrorCode get_finite_element_entities_by_handle(const std::string name,
703 Range &ents) const;
704 MoFEMErrorCode list_finite_elements() const;
705
706 /**@}*/
707
708 /** \name Problems */
709
710 /**@{*/
711
712 MoFEMErrorCode add_problem(const std::string &name,
713 enum MoFEMTypes bh = MF_EXCL,
714 int verb = DEFAULT_VERBOSITY);
715 bool check_problem(const std::string name);
716 MoFEMErrorCode delete_problem(const std::string name);
717 MoFEMErrorCode
718 modify_problem_add_finite_element(const std::string name_problem,
719 const std::string &fe_name);
720 MoFEMErrorCode
721 modify_problem_unset_finite_element(const std::string name_problem,
722 const std::string &fe_name);
723 MoFEMErrorCode
724 modify_problem_ref_level_add_bit(const std::string &name_problem,
725 const BitRefLevel &bit);
726 MoFEMErrorCode
727 modify_problem_ref_level_set_bit(const std::string &name_problem,
728 const BitRefLevel &bit);
729 MoFEMErrorCode
730 modify_problem_mask_ref_level_add_bit(const std::string &name_problem,
731 const BitRefLevel &bit);
732 MoFEMErrorCode
733 modify_problem_mask_ref_level_set_bit(const std::string &name_problem,
734 const BitRefLevel &bit);
735 BitProblemId getBitProblemId(const std::string &name) const;
736 MoFEMErrorCode list_problem() const;
737 MoFEMErrorCode clear_problem(const std::string name,
738 int verb = DEFAULT_VERBOSITY);
739 MoFEMErrorCode clear_problems(int verb = DEFAULT_VERBOSITY);
740 MoFEMErrorCode build_finite_elements(int verb = DEFAULT_VERBOSITY);
741 MoFEMErrorCode build_finite_elements(const BitRefLevel &bit,
742 int verb = DEFAULT_VERBOSITY);
743 MoFEMErrorCode build_finite_elements(const string fe_name,
744 const Range *const ents_ptr = nullptr,
745 int verb = DEFAULT_VERBOSITY);
746 MoFEMErrorCode buildFiniteElements(const boost::shared_ptr<FiniteElement> &fe,
747 const Range *ents_ptr = NULL,
748 int verb = DEFAULT_VERBOSITY);
749 MoFEMErrorCode clear_finite_elements_by_bit_ref(const BitRefLevel bit,
750 const BitRefLevel mask,
751 int verb = DEFAULT_VERBOSITY);
752 MoFEMErrorCode clear_finite_elements(const Range &ents,
753 int verb = DEFAULT_VERBOSITY);
754 MoFEMErrorCode clear_finite_elements(const std::string &fe_name,
755 const Range &ents,
756 int verb = DEFAULT_VERBOSITY);
757
758 MoFEMErrorCode
759 get_problem_finite_elements_entities(const std::string name,
760 const std::string &fe_name,
761 const EntityHandle meshset);
762
763 // \name Problem building (deprecated)
764
765 DEPRECATED MoFEMErrorCode
766 build_problem_on_distributed_mesh(int verb = DEFAULT_VERBOSITY);
767 DEPRECATED MoFEMErrorCode build_problems(int verb = DEFAULT_VERBOSITY);
768
769 /**@}*/
770
771 /** \name Adjacencies */
772
773 /**@{*/
774
775 MoFEMErrorCode build_adjacencies(const Range &ents,
776 int verb = DEFAULT_VERBOSITY);
777 MoFEMErrorCode build_adjacencies(const BitRefLevel &bit,
778 int verb = DEFAULT_VERBOSITY);
779 MoFEMErrorCode build_adjacencies(const BitRefLevel &bit,
780 const BitRefLevel &mask,
781 int verb = DEFAULT_VERBOSITY);
782 MoFEMErrorCode clear_adjacencies_entities(const BitRefLevel bit,
783 const BitRefLevel mask,
784 int verb = DEFAULT_VERBOSITY);
785 MoFEMErrorCode clear_adjacencies_entities(const Range ents,
786 int verb = DEFAULT_VERBOSITY);
787 MoFEMErrorCode clear_adjacencies_entities(const std::string name,
788 const Range ents,
789 int verb = DEFAULT_VERBOSITY);
790 MoFEMErrorCode
791 clear_adjacencies_finite_elements(const BitRefLevel bit,
792 const BitRefLevel mask,
793 int verb = DEFAULT_VERBOSITY);
794 MoFEMErrorCode
795 clear_adjacencies_finite_elements(const Range ents,
796 int verb = DEFAULT_VERBOSITY);
797 MoFEMErrorCode
798 clear_adjacencies_finite_elements(const std::string name, const Range ents,
799 int verb = DEFAULT_VERBOSITY);
800
801 /**@}*/
802
803 /** \name Methods for preforming operations on elements */
804
805 /**@{*/
806
807 MoFEMErrorCode problem_basic_method_preProcess(const Problem *problem_ptr,
808 BasicMethod &method,
809 int verb = DEFAULT_VERBOSITY);
810 MoFEMErrorCode
811 problem_basic_method_preProcess(const std::string &problem_name,
812 BasicMethod &method,
813 int verb = DEFAULT_VERBOSITY);
814 MoFEMErrorCode problem_basic_method_postProcess(const Problem *problem_ptr,
815 BasicMethod &method,
816 int verb = DEFAULT_VERBOSITY);
817 MoFEMErrorCode
818 problem_basic_method_postProcess(const std::string &problem_name,
819 BasicMethod &method,
820 int verb = DEFAULT_VERBOSITY);
821
822 /**
823 * @copydoc MoFEM::CoreInterface::cache_problem_entities
824 */
825 MoFEMErrorCode cache_problem_entities(const std::string prb_name,
826 CacheTupleWeakPtr cache_ptr);
827
828 MoFEMErrorCode loop_finite_elements(
829 const Problem *problem_ptr, const std::string &fe_name, FEMethod &method,
830 int lower_rank, int upper_rank,
831 boost::shared_ptr<NumeredEntFiniteElement_multiIndex> fe_ptr = nullptr,
832 MoFEMTypes bh = MF_EXIST,
833 CacheTupleWeakPtr cache_ptr = CacheTupleSharedPtr(),
834 int verb = DEFAULT_VERBOSITY);
835
836 MoFEMErrorCode loop_finite_elements(
837 const std::string problem_name, const std::string &fe_name,
838 FEMethod &method, int lower_rank, int upper_rank,
839 boost::shared_ptr<NumeredEntFiniteElement_multiIndex> fe_ptr = nullptr,
840 MoFEMTypes bh = MF_EXIST,
841 CacheTupleWeakPtr cache_ptr = CacheTupleSharedPtr(),
842 int verb = DEFAULT_VERBOSITY);
843
844 MoFEMErrorCode loop_finite_elements(
845 const std::string problem_name, const std::string &fe_name,
846 FEMethod &method,
847 boost::shared_ptr<NumeredEntFiniteElement_multiIndex> fe_ptr = nullptr,
848 MoFEMTypes bh = MF_EXIST,
849 CacheTupleWeakPtr cache_ptr = CacheTupleSharedPtr(),
850 int verb = DEFAULT_VERBOSITY);
851
852 MoFEMErrorCode loop_dofs(const Problem *problem_ptr,
853 const std::string &field_name, RowColData rc,
854 DofMethod &method, int lower_rank, int upper_rank,
855 int verb = DEFAULT_VERBOSITY);
856 MoFEMErrorCode loop_dofs(const std::string &problem_name,
857 const std::string &field_name, RowColData rc,
858 DofMethod &method, int lower_rank, int upper_rank,
859 int verb = DEFAULT_VERBOSITY);
860 MoFEMErrorCode loop_dofs(const std::string &problem_name,
861 const std::string &field_name, RowColData rc,
862 DofMethod &method, int verb = DEFAULT_VERBOSITY);
863 MoFEMErrorCode loop_dofs(const std::string &field_name, DofMethod &method,
864 int verb = DEFAULT_VERBOSITY);
865 MoFEMErrorCode loop_entities(const Problem *problem_ptr,
866 const std::string field_name, RowColData rc,
867 EntityMethod &method, int lower_rank,
868 int upper_rank, int verb = DEFAULT_VERBOSITY);
869 MoFEMErrorCode loop_entities(const std::string problem_name,
870 const std::string field_name, RowColData rc,
871 EntityMethod &method, int lower_rank,
872 int upper_rank, int verb = DEFAULT_VERBOSITY);
873 MoFEMErrorCode loop_entities(const std::string problem_name,
874 const std::string field_name, RowColData rc,
875 EntityMethod &method,
876 int verb = DEFAULT_VERBOSITY);
877 MoFEMErrorCode loop_entities(const std::string field_name,
878 EntityMethod &method,
879 Range const *const ents = nullptr,
880 int verb = DEFAULT_VERBOSITY);
881
882 /**@}*/
883
884 /** \name Accessing multi-indices */
885
886 /**@{*/
887
888 MoFEMErrorCode get_fields(const Field_multiIndex **fields_ptr) const;
889 MoFEMErrorCode
890 get_ref_ents(const RefEntity_multiIndex **refined_entities_ptr) const;
891 MoFEMErrorCode get_ref_finite_elements(
892 const RefElement_multiIndex **refined_finite_elements_ptr) const;
893 MoFEMErrorCode
894 get_finite_elements(const FiniteElement_multiIndex **fe_ptr) const;
895 MoFEMErrorCode get_ents_finite_elements(
896 const EntFiniteElement_multiIndex **fe_ent_ptr) const;
897 MoFEMErrorCode
898 get_field_ents(const FieldEntity_multiIndex **field_ents) const;
899 MoFEMErrorCode get_dofs(const DofEntity_multiIndex **dofs_ptr) const;
900 MoFEMErrorCode get_problem(const std::string &problem_name,
901 const Problem **problem_ptr) const;
902 MoFEMErrorCode get_problems(const Problem_multiIndex **problems_ptr) const;
903 MoFEMErrorCode get_ents_elements_adjacency(
904 const FieldEntityEntFiniteElementAdjacencyMap_multiIndex *
905 *dofs_elements_adjacency) const;
906
907 const Field_multiIndex *get_fields() const;
908 const RefEntity_multiIndex *get_ref_ents() const;
909 const RefElement_multiIndex *get_ref_finite_elements() const;
910 const FiniteElement_multiIndex *get_finite_elements() const;
911 const EntFiniteElement_multiIndex *get_ents_finite_elements() const;
912 const FieldEntity_multiIndex *get_field_ents() const;
913 const DofEntity_multiIndex *get_dofs() const;
914 const Problem *get_problem(const std::string problem_name) const;
915 const Problem_multiIndex *get_problems() const;
916 const FieldEntityEntFiniteElementAdjacencyMap_multiIndex *
917 get_ents_elements_adjacency() const;
918
919 FieldEntityByUId::iterator
920 get_ent_field_by_name_begin(const std::string &field_name) const;
921 FieldEntityByUId::iterator
922 get_ent_field_by_name_end(const std::string &field_name) const;
923 DofEntityByUId::iterator
924 get_dofs_by_name_begin(const std::string &field_name) const;
925 DofEntityByUId::iterator
926 get_dofs_by_name_end(const std::string &field_name) const;
927 DofEntityByUId::iterator
928 get_dofs_by_name_and_ent_begin(const std::string &field_name,
929 const EntityHandle ent) const;
930 DofEntityByUId::iterator
931 get_dofs_by_name_and_ent_end(const std::string &field_name,
932 const EntityHandle ent) const;
933 DofEntityByUId::iterator
934 get_dofs_by_name_and_type_begin(const std::string &field_name,
935 const EntityType type) const;
936 DofEntityByUId::iterator
937 get_dofs_by_name_and_type_end(const std::string &field_name,
938 const EntityType ent) const;
939
940 EntFiniteElement_multiIndex::index<Unique_mi_tag>::type::iterator
941 get_fe_by_name_begin(const std::string &fe_name) const;
942 EntFiniteElement_multiIndex::index<Unique_mi_tag>::type::iterator
943 get_fe_by_name_end(const std::string &fe_name) const;
944
945 /**@}*/
946
947 /** \name Log events */
948
949 /**@{*/
950
951 // Events are are using for logging and hailed by PETSc
952
953 PetscLogEvent MOFEM_EVENT_preProcess; ///< Event for preProcess finite element
954 PetscLogEvent
955 MOFEM_EVENT_operator; ///< Event for evaluating operator of finite element
956 PetscLogEvent
957 MOFEM_EVENT_postProcess; ///< Event for postProcess finite element
958 PetscLogEvent MOFEM_EVENT_createMat;
959
960 /**@}*/
961
962 /** \name Communicator */
963
964 /**@{*/
965
966 mutable MPI_Comm mofemComm; ///< MoFEM communicator
967 mutable ParallelComm *pComm; ///< MOAB communicator structure
968
969 int sIze; ///< MoFEM communicator size
970 int rAnk; ///< MOFEM communicator rank
971
972 /**
973 * @return return communicator
974 */
975 inline MPI_Comm &get_comm() const { return mofemComm; }
976
977 /**
978 * @return return communicator size
979 */
980 inline int get_comm_size() const { return sIze; }
981
982 /**
983 * @return return communicator rank/processor
984 */
985 inline int get_comm_rank() const { return rAnk; }
986
987 /**@}*/
988
989protected:
990 boost::shared_ptr<WrapMPIComm>
991 wrapMPIMOABComm; ///< manage creation and destruction of MOAB communicator
992
993 int verbose; ///< Verbosity level
994
995 /**
996 * \brief Hash map of pointers to interfaces
997 */
998 mutable boost::ptr_map<boost::typeindex::type_index, UnknownInterface> iFaces;
999
1000 mutable int *buildMoFEM; ///< keeps flags/semaphores for different stages
1001
1002 std::string optionsPrefix; ///< Prefix for options on command line
1003
1004 PetscBool initaliseAndBuildField; ///< If true build field on database
1005 ///< initialisation
1006
1007 PetscBool initaliseAndBuildFiniteElements; // If true build finite elements on
1008 // database initialisation
1009
1010 static bool isGloballyInitialised; ///< Core base globally initialized
1011 static int mpiInitialised; ///< mpi was initialised by other agent
1012 static PetscBool isInitialized; ///< petsc was initialised by other agent
1013
1014 /**
1015 * @brief add problem
1016 *
1017 * @param id problem id
1018 * @param name problem name
1019 * @param verb verbosity level
1020 * @return MoFEMErrorCode
1021 */
1022 MoFEMErrorCode addProblem(const BitProblemId id, const std::string &name,
1023 int verb = DEFAULT_VERBOSITY);
1024
1025 /**
1026 * \brief Get tag handles
1027 * @param verb verbosity level
1028 * @return error code
1029 */
1030 MoFEMErrorCode getTags(int verb = DEFAULT_VERBOSITY);
1031
1032 /**
1033 * \brief Cleaning database
1034 */
1035 MoFEMErrorCode clearMap();
1036
1037 /**
1038 * @brief Register insterfaces
1039 *
1040 * @return MoFEMErrorCode
1041 */
1042 MoFEMErrorCode registerSubInterfaces();
1043
1044 /**
1045 * \brief Return unique problem Id
1046 *
1047 * Each time this function is called, it gives new unit problem Id for bit.
1048 *
1049 */
1050 BitProblemId getProblemShift();
1051
1052 /**
1053 * \brief Initialize database getting information on mesh
1054 */
1055 MoFEMErrorCode initialiseDatabaseFromMesh(int verb = DEFAULT_VERBOSITY);
1056
1057 /**
1058 * @brief Get core options from command line
1059 *
1060 * @return MoFEMErrorCode
1061 */
1062 MoFEMErrorCode getOptions(int verb = DEFAULT_VERBOSITY);
1063
1064 /**
1065 * @brief Register subinterfac in core interface
1066 *
1067 * @tparam IFACE
1068 * @return MoFEMErrorCode
1069 */
1070 template <class IFACE> MoFEMErrorCode regSubInterface();
1071};
1072
1073template <> struct CoreTmp<-1> : public CoreTmp<0> {
1074
1075 static constexpr const int value = -1;
1076 const int getValue() const { return value; }
1077
1078 virtual boost::shared_ptr<RefEntityTmp<0>>
1079 make_shared_ref_entity(const EntityHandle ent);
1080
1081 /**
1082 * Construct core database
1083 */
1084 CoreTmp(moab::Interface &moab, ///< MoAB interface
1085 MPI_Comm comm = PETSC_COMM_WORLD, ///< MPI communicator
1086 const int verbose = VERBOSE ///< Verbosity level
1087
1088 );
1089
1090 virtual MoFEMErrorCode set_moab_interface(moab::Interface &new_moab,
1091 int verb = VERBOSE);
1092};
1093
1094using Core = CoreTmp<0>;
1095
1096} // namespace MoFEM
1097
1098#include <CoreTemplates.hpp>
1099
1100#endif // __CORE_HPP__
FieldEntityEntFiniteElementAdjacencyMap_multiIndex
multi_index_container< FieldEntityEntFiniteElementAdjacencyMap, indexed_by< ordered_unique< tag< Composite_Unique_mi_tag >, composite_key< FieldEntityEntFiniteElementAdjacencyMap, const_mem_fun< FieldEntityEntFiniteElementAdjacencyMap, UId, &FieldEntityEntFiniteElementAdjacencyMap::getEntUniqueId >, const_mem_fun< FieldEntityEntFiniteElementAdjacencyMap, UId, &FieldEntityEntFiniteElementAdjacencyMap::getFeUniqueId > > >, ordered_non_unique< tag< Unique_mi_tag >, const_mem_fun< FieldEntityEntFiniteElementAdjacencyMap, UId, &FieldEntityEntFiniteElementAdjacencyMap::getEntUniqueId > >, ordered_non_unique< tag< FE_Unique_mi_tag >, const_mem_fun< FieldEntityEntFiniteElementAdjacencyMap, UId, &FieldEntityEntFiniteElementAdjacencyMap::getFeUniqueId > >, ordered_non_unique< tag< FEEnt_mi_tag >, const_mem_fun< FieldEntityEntFiniteElementAdjacencyMap, EntityHandle, &FieldEntityEntFiniteElementAdjacencyMap::getFeHandle > >, ordered_non_unique< tag< Ent_mi_tag >, const_mem_fun< FieldEntityEntFiniteElementAdjacencyMap, EntityHandle, &FieldEntityEntFiniteElementAdjacencyMap::getEntHandle > > > > FieldEntityEntFiniteElementAdjacencyMap_multiIndex
MultiIndex container keeps Adjacencies Element and dof entities adjacencies and vice versa.
Definition: AdjacencyMultiIndices.hpp:114
CoreTemplates.hpp
Core interface class for user interface.
Field_multiIndex
multi_index_container< boost::shared_ptr< Field >, indexed_by< hashed_unique< tag< BitFieldId_mi_tag >, const_mem_fun< Field, const BitFieldId &, &Field::getId >, HashBit< BitFieldId >, EqBit< BitFieldId > >, ordered_unique< tag< Meshset_mi_tag >, member< Field, EntityHandle, &Field::meshSet > >, ordered_unique< tag< FieldName_mi_tag >, const_mem_fun< Field, boost::string_ref, &Field::getNameRef > >, ordered_non_unique< tag< BitFieldId_space_mi_tag >, const_mem_fun< Field, FieldSpace, &Field::getSpace > > > > Field_multiIndex
Field_multiIndex for Field.
Definition: FieldMultiIndices.hpp:467
help
static char help[]
Definition: activate_deactivate_dofs.cpp:13
DEFAULT_VERBOSITY
@ DEFAULT_VERBOSITY
Definition: definitions.h:207
VERBOSE
@ VERBOSE
Definition: definitions.h:209
RowColData
RowColData
RowColData.
Definition: definitions.h:123
MoFEMTypes
MoFEMTypes
Those types control how functions respond on arguments, f.e. error handling.
Definition: definitions.h:97
MF_ZERO
@ MF_ZERO
Definition: definitions.h:98
MF_EXIST
@ MF_EXIST
Definition: definitions.h:100
MF_EXCL
@ MF_EXCL
Definition: definitions.h:99
FieldApproximationBase
FieldApproximationBase
approximation base
Definition: definitions.h:58
FieldSpace
FieldSpace
approximation spaces
Definition: definitions.h:82
DEPRECATED
#define DEPRECATED
Definition: definitions.h:17
dim
const int dim
Definition: elec_phys_2D.cpp:12
order
int order
Definition: fluid_structure_eigenproblem.cpp:84
DofEntity_multiIndex
multi_index_container< boost::shared_ptr< DofEntity >, indexed_by< ordered_unique< tag< Unique_mi_tag >, const_mem_fun< DofEntity, UId, &DofEntity::getLocalUniqueId > >, ordered_non_unique< tag< Ent_mi_tag >, const_mem_fun< DofEntity, EntityHandle, &DofEntity::getEnt > > > > DofEntity_multiIndex
MultiIndex container keeps DofEntity.
Definition: DofsMultiIndices.hpp:317
MoFEM::RefEntity_multiIndex
multi_index_container< boost::shared_ptr< RefEntity >, indexed_by< ordered_unique< tag< Ent_mi_tag >, const_mem_fun< RefEntity, EntityHandle, &RefEntity::getEnt > >, ordered_non_unique< tag< Ent_Ent_mi_tag >, const_mem_fun< RefEntity, EntityHandle, &RefEntity::getParentEnt > >, ordered_non_unique< tag< Composite_EntType_and_ParentEntType_mi_tag >, composite_key< RefEntity, const_mem_fun< RefEntity, EntityType, &RefEntity::getEntType >, const_mem_fun< RefEntity, EntityType, &RefEntity::getParentEntType > > >, ordered_non_unique< tag< Composite_ParentEnt_And_EntType_mi_tag >, composite_key< RefEntity, const_mem_fun< RefEntity, EntityType, &RefEntity::getEntType >, const_mem_fun< RefEntity, EntityHandle, &RefEntity::getParentEnt > > > > > RefEntity_multiIndex
Definition: RefEntsMultiIndices.hpp:749
MoFEM::RefElement_multiIndex
multi_index_container< boost::shared_ptr< RefElement >, indexed_by< ordered_unique< tag< Ent_mi_tag >, const_mem_fun< RefElement::interface_type_RefEntity, EntityHandle, &RefElement::getEnt > > > > RefElement_multiIndex
Definition: RefElementMultiIndices.hpp:180
EntFiniteElement_multiIndex
multi_index_container< boost::shared_ptr< EntFiniteElement >, indexed_by< ordered_unique< tag< Unique_mi_tag >, const_mem_fun< EntFiniteElement, UId, &EntFiniteElement::getLocalUniqueId > >, ordered_non_unique< tag< Ent_mi_tag >, const_mem_fun< EntFiniteElement::interface_type_RefEntity, EntityHandle, &EntFiniteElement::getEnt > > > > EntFiniteElement_multiIndex
MultiIndex container for EntFiniteElement.
Definition: FEMultiIndices.hpp:800
Problem_multiIndex
multi_index_container< Problem, indexed_by< ordered_unique< tag< Meshset_mi_tag >, member< Problem, EntityHandle, &Problem::meshset > >, hashed_unique< tag< BitProblemId_mi_tag >, const_mem_fun< Problem, BitProblemId, &Problem::getId >, HashBit< BitProblemId >, EqBit< BitProblemId > >, hashed_unique< tag< Problem_mi_tag >, const_mem_fun< Problem, std::string, &Problem::getName > > > > Problem_multiIndex
MultiIndex for entities for Problem.
Definition: ProblemsMultiIndices.hpp:630
MoFEM::ElementAdjacencyFunct
boost::function< MoFEMErrorCode(Interface &moab, const Field &field, const EntFiniteElement &fe, std::vector< EntityHandle > &adjacency)> ElementAdjacencyFunct
user adjacency function
Definition: FEMultiIndices.hpp:20
FiniteElement_multiIndex
multi_index_container< boost::shared_ptr< FiniteElement >, indexed_by< hashed_unique< tag< FiniteElement_Meshset_mi_tag >, member< FiniteElement, EntityHandle, &FiniteElement::meshset > >, hashed_unique< tag< BitFEId_mi_tag >, const_mem_fun< FiniteElement, BitFEId, &FiniteElement::getId >, HashBit< BitFEId >, EqBit< BitFEId > >, ordered_unique< tag< FiniteElement_name_mi_tag >, const_mem_fun< FiniteElement, boost::string_ref, &FiniteElement::getNameRef > > > > FiniteElement_multiIndex
MultiIndex for entities for FiniteElement.
Definition: FEMultiIndices.hpp:849
bit
auto bit
set bit
Definition: hanging_node_approx.cpp:75
MoFEM::Exceptions::MoFEMErrorCode
PetscErrorCode MoFEMErrorCode
MoFEM/PETSc error code.
Definition: Exceptions.hpp:56
MoFEM::Types::BitFEId
std::bitset< BITFEID_SIZE > BitFEId
Finite element Id.
Definition: Types.hpp:43
MoFEM::Types::BitProblemId
std::bitset< BITPROBLEMID_SIZE > BitProblemId
Problem Id.
Definition: Types.hpp:44
MoFEM::Types::ApproximationOrder
int ApproximationOrder
Approximation on the entity.
Definition: Types.hpp:26
MoFEM::Types::BitFieldId
std::bitset< BITFIELDID_SIZE > BitFieldId
Field Id.
Definition: Types.hpp:42
MoFEM::Types::FieldCoefficientsNumber
int FieldCoefficientsNumber
Number of field coefficients.
Definition: Types.hpp:27
MoFEM::Types::BitRefLevel
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition: Types.hpp:40
MoFEM::Types::FieldBitNumber
char FieldBitNumber
Field bit number.
Definition: Types.hpp:28
MoFEM
implementation of Data Operators for Forces and Sources
Definition: Common.hpp:10
MoFEM::CacheTupleSharedPtr
boost::shared_ptr< CacheTuple > CacheTupleSharedPtr
Definition: FEMultiIndices.hpp:495
MoFEM::FieldEntity_multiIndex
multi_index_container< boost::shared_ptr< FieldEntity >, indexed_by< ordered_unique< tag< Unique_mi_tag >, member< FieldEntity, UId, &FieldEntity::localUId > >, ordered_non_unique< tag< Ent_mi_tag >, const_mem_fun< FieldEntity::interface_type_RefEntity, EntityHandle, &FieldEntity::getEnt > > > > FieldEntity_multiIndex
Definition: FieldEntsMultiIndices.hpp:469
MoFEM::CacheTupleWeakPtr
boost::weak_ptr< CacheTuple > CacheTupleWeakPtr
Definition: FEMultiIndices.hpp:494
field_name
constexpr auto field_name
Definition: poisson_2d_homogeneous.cpp:13
N
const int N
Definition: speed_test.cpp:3
MoFEM::BasicMethod
Data structure to exchange data between mofem and User Loop Methods.
Definition: LoopMethods.hpp:183
MoFEM::CoreTmp<-1 >::getValue
const int getValue() const
Get the core.
Definition: Core.hpp:1076
MoFEM::CoreTmp< 0 >
Core (interface) class.
Definition: Core.hpp:82
MoFEM::CoreTmp< 0 >::get_basic_entity_data_ptr
boost::shared_ptr< BasicEntityData > & get_basic_entity_data_ptr()
Get pointer to basic entity data.
Definition: Core.hpp:290
MoFEM::CoreTmp< 0 >::get_meshsets_manager
const MeshsetsManager & get_meshsets_manager() const
get MeshsetsManager pointer
Definition: Core.hpp:364
MoFEM::CoreTmp< 0 >::get_comm
MPI_Comm & get_comm() const
Definition: Core.hpp:975
MoFEM::CoreTmp< 0 >::MOFEM_EVENT_createMat
PetscLogEvent MOFEM_EVENT_createMat
Definition: Core.hpp:958
MoFEM::CoreTmp< 0 >::isGloballyInitialised
static bool isGloballyInitialised
Core base globally initialized.
Definition: Core.hpp:1010
MoFEM::CoreTmp< 0 >::initaliseAndBuildFiniteElements
PetscBool initaliseAndBuildFiniteElements
Definition: Core.hpp:1007
MoFEM::CoreTmp< 0 >::th_ProblemNbDofsCol
Tag th_ProblemNbDofsCol
Definition: Core.hpp:265
MoFEM::CoreTmp< 0 >::get_comm_rank
int get_comm_rank() const
Definition: Core.hpp:985
MoFEM::CoreTmp< 0 >::finiteElements
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:307
MoFEM::CoreTmp< 0 >::get_moab
const moab::Interface & get_moab() const
Definition: Core.hpp:323
MoFEM::CoreTmp< 0 >::entsFields
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:304
MoFEM::CoreTmp< 0 >::fIelds
Field_multiIndex fIelds
fields
Definition: Core.hpp:303
MoFEM::CoreTmp< 0 >::entsFiniteElements
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:308
MoFEM::CoreTmp< 0 >::getBuildMoFEM
int & getBuildMoFEM() const
Get flags/semaphores for different stages.
Definition: Core.hpp:225
MoFEM::CoreTmp< 0 >::MOFEM_EVENT_preProcess
PetscLogEvent MOFEM_EVENT_preProcess
Event for preProcess finite element.
Definition: Core.hpp:953
MoFEM::CoreTmp< 0 >::get_comm_size
int get_comm_size() const
Definition: Core.hpp:980
MoFEM::CoreTmp< 0 >::dofsField
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:305
MoFEM::CoreTmp< 0 >::th_Part
Tag th_Part
Tag for partition number.
Definition: Core.hpp:257
MoFEM::CoreTmp< 0 >::isInitialized
static PetscBool isInitialized
petsc was initialised by other agent
Definition: Core.hpp:1012
MoFEM::CoreTmp< 0 >::verbose
int verbose
Verbosity level.
Definition: Core.hpp:993
MoFEM::CoreTmp< 0 >::initaliseAndBuildField
PetscBool initaliseAndBuildField
Definition: Core.hpp:1004
MoFEM::CoreTmp< 0 >::sIze
int sIze
MoFEM communicator size.
Definition: Core.hpp:969
MoFEM::CoreTmp< 0 >::refinedFiniteElements
RefElement_multiIndex refinedFiniteElements
refined elements
Definition: Core.hpp:301
MoFEM::CoreTmp< 0 >::rAnk
int rAnk
MOFEM communicator rank.
Definition: Core.hpp:970
MoFEM::CoreTmp< 0 >::th_ElemType
Tag th_ElemType
Needed for VTK files.
Definition: Core.hpp:269
MoFEM::CoreTmp< 0 >::refinedEntities
RefEntity_multiIndex refinedEntities
refined entities
Definition: Core.hpp:300
MoFEM::CoreTmp< 0 >::get_meshsets_manager
MeshsetsManager & get_meshsets_manager()
get MeshsetsManager pointer
Definition: Core.hpp:361
MoFEM::CoreTmp< 0 >::pComm
ParallelComm * pComm
MOAB communicator structure.
Definition: Core.hpp:967
MoFEM::CoreTmp< 0 >::MOFEM_EVENT_operator
PetscLogEvent MOFEM_EVENT_operator
Event for evaluating operator of finite element.
Definition: Core.hpp:955
MoFEM::CoreTmp< 0 >::get_th_RefBitLevel
Tag get_th_RefBitLevel() const
Definition: Core.hpp:198
MoFEM::CoreTmp< 0 >::getProblemShift
BitProblemId getProblemShift()
Return unique problem Id.
MoFEM::CoreTmp< 0 >::get_moab
moab::Interface & get_moab()
Definition: Core.hpp:322
MoFEM::CoreTmp< 0 >::mofemComm
MPI_Comm mofemComm
MoFEM communicator.
Definition: Core.hpp:966
MoFEM::CoreTmp< 0 >::optionsPrefix
std::string optionsPrefix
Prefix for options on command line.
Definition: Core.hpp:1002
MoFEM::CoreTmp< 0 >::buildMoFEM
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:1000
MoFEM::CoreTmp< 0 >::get_th_RefParentHandle
Tag get_th_RefParentHandle() const
Definition: Core.hpp:197
MoFEM::CoreTmp< 0 >::getValue
const int getValue() const
Get the core.
Definition: Core.hpp:85
MoFEM::CoreTmp< 0 >::check_problem
bool check_problem(const std::string name)
check if problem exist
MoFEM::CoreTmp< 0 >::mpiInitialised
static int mpiInitialised
mpi was initialised by other agent
Definition: Core.hpp:1011
MoFEM::CoreTmp< 0 >::th_ProblemGhostNbDofRow
Tag th_ProblemGhostNbDofRow
Definition: Core.hpp:266
MoFEM::CoreTmp< 0 >::MOFEM_EVENT_postProcess
PetscLogEvent MOFEM_EVENT_postProcess
Event for postProcess finite element.
Definition: Core.hpp:957
MoFEM::CoreTmp< 0 >::basicEntityDataPtr
boost::shared_ptr< BasicEntityData > basicEntityDataPtr
Definition: Core.hpp:281
MoFEM::CoreTmp< 0 >::moab
std::reference_wrapper< moab::Interface > moab
moab database
Definition: Core.hpp:321
MoFEM::CoreTmp< 0 >::entFEAdjacencies
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:311
MoFEM::CoreTmp< 0 >::pRoblems
Problem_multiIndex pRoblems
problems multi-index
Definition: Core.hpp:313
MoFEM::CoreTmp< 0 >::th_ProblemGhostNbDofCol
Tag th_ProblemGhostNbDofCol
Definition: Core.hpp:267
MoFEM::CoreTmp< 0 >::get_th_RefBitEdge
Tag get_th_RefBitEdge() const
Definition: Core.hpp:199
MoFEM::CoreTmp< 0 >::setFieldOrder
MoFEMErrorCode setFieldOrder(const Range &ents, const BitFieldId id, const ApproximationOrder order, int ver)
MoFEM::CoreTmp< 0 >::iFaces
boost::ptr_map< boost::typeindex::type_index, UnknownInterface > iFaces
Hash map of pointers to interfaces.
Definition: Core.hpp:998
MoFEM::CoreTmp< 0 >::wrapMPIMOABComm
boost::shared_ptr< WrapMPIComm > wrapMPIMOABComm
manage creation and destruction of MOAB communicator
Definition: Core.hpp:991
MoFEM::CoreTmp< 0 >::getRefEntity
RefEntityTmp< 0 > getRefEntity(const EntityHandle ent)
Definition: Core.hpp:86
MoFEM::CoreTmp::set_moab_interface
MoFEMErrorCode set_moab_interface(moab::Interface &new_moab, int verb)
Definition: CoreTemplates.hpp:20
MoFEM::CoreTmp::value
static constexpr const int value
Definition: Core.hpp:38
MoFEM::CoreTmp::getValue
const int getValue() const
Definition: Core.hpp:39
MoFEM::CoreTmp::make_shared_ref_entity
virtual boost::shared_ptr< RefEntityTmp< 0 > > make_shared_ref_entity(const EntityHandle ent)
Definition: CoreTemplates.hpp:27
MoFEM::DeprecatedCoreInterface
Deprecated interface functions.
Definition: DeprecatedCoreInterface.hpp:16
MoFEM::DofMethod
Data structure to exchange data between mofem and User Loop Methods on entities.
Definition: LoopMethods.hpp:493
MoFEM::EntityMethod
Data structure to exchange data between mofem and User Loop Methods on entities.
Definition: LoopMethods.hpp:471
MoFEM::FEMethod
structure for User Loop Methods on finite elements
Definition: LoopMethods.hpp:369
MoFEM::Field
Provide data structure for (tensor) field approximation.
Definition: FieldMultiIndices.hpp:51
MoFEM::FiniteElement
Finite element definition.
Definition: FEMultiIndices.hpp:26
MoFEM::MeshsetsManager
Interface for managing meshsets containing materials and boundary conditions.
Definition: MeshsetsManager.hpp:104
MoFEM::Problem
keeps basic data about problem
Definition: ProblemsMultiIndices.hpp:40
MoFEM::UnknownInterface
base class for all interface classes
Definition: UnknownInterface.hpp:34
MoFEM::WrapMPIComm
Wrap MPI comminitactor such that is destroyed when is out of scope.
Definition: Core.hpp:19
MoFEM::WrapMPIComm::duplicatedComm
MPI_Comm duplicatedComm
Definition: Core.hpp:27
MoFEM::WrapMPIComm::get_comm
auto get_comm()
Definition: Core.hpp:23
MoFEM::WrapMPIComm::comm
MPI_Comm comm
Definition: Core.hpp:26
MoFEM::WrapMPIComm::isPetscComm
bool isPetscComm
Definition: Core.hpp:28
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