v0.8.23
Classes | Public Member Functions | Private Member Functions | Private Attributes | Static Private Attributes | List of all members
MoFEM::Core Struct Reference

Core (interface) class. More...

#include <src/interfaces/Core.hpp>

Inheritance diagram for MoFEM::Core:
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Collaboration diagram for MoFEM::Core:
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Classes

struct  WrapMPIComm
 

Public Member Functions

 Core (moab::Interface &moab, MPI_Comm comm=PETSC_COMM_WORLD, const int verbose=VERBOSE, const bool distributed_mesh=true)
 
 ~Core ()
 
- Public Member Functions inherited from MoFEM::DeprecatedCoreInterface
template<class IFace >
DEPRECATED MoFEMErrorCode query_interface (IFace *&ptr) const
 
template<class IFace >
DEPRECATED IFace * query_interface () const
 
virtual DEPRECATED MoFEMErrorCode seed_ref_level_2D (const EntityHandle meshset, const BitRefLevel &bit, int verb=-1)
 seed 2D entities (Triangles entities only) in the meshset and their adjacencies (only TRIs adjacencies) in a particular BitRefLevel More...
 
DEPRECATED MoFEMErrorCode seed_ref_level_3D (const EntityHandle meshset, const BitRefLevel &bit, int verb=-1)
 seed 2D entities in the meshset and their adjacencies (only TETs adjacencies) in a particular BitRefLevel More...
 
DEPRECATED MoFEMErrorCode seed_ref_level (const Range &ents, const BitRefLevel &bit, const bool only_tets=true, int verb=-1)
 seed entities in the range and their adjacencies in a particular BitRefLevel More...
 
DEPRECATED MoFEMErrorCode seed_ref_level_MESHSET (const EntityHandle meshset, const BitRefLevel &bit, int verb=-1)
 
DEPRECATED MoFEMErrorCode seed_finite_elements (const EntityHandle meshset, int verb=-1)
 
DEPRECATED MoFEMErrorCode seed_finite_elements (const Range &entities, int verb=-1)
 
DEPRECATED MoFEMErrorCode get_entities_by_type_and_ref_level (const BitRefLevel &bit, const BitRefLevel &mask, const EntityType type, const EntityHandle meshset, int verb=-1)
 add all ents from ref level given by bit to meshset More...
 
DEPRECATED MoFEMErrorCode get_entities_by_type_and_ref_level (const BitRefLevel &bit, const BitRefLevel &mask, const EntityType type, Range &ents, int verb=-1)
 add all ents from ref level given by bit to meshset More...
 
DEPRECATED MoFEMErrorCode get_entities_by_ref_level (const BitRefLevel &bit, const BitRefLevel &mask, const EntityHandle meshset)
 add all ents from ref level given by bit to meshset More...
 
DEPRECATED MoFEMErrorCode get_entities_by_ref_level (const BitRefLevel &bit, const BitRefLevel &mask, Range &ents)
 add all ents from ref level given by bit to meshset More...
 
DEPRECATED bool check_msId_meshset (const int msId, const CubitBCType cubit_bc_type)
 check for CUBIT Id and CUBIT type More...
 
DEPRECATED MoFEMErrorCode add_cubit_msId (const CubitBCType cubit_bc_tyep, const int msId, const std::string name="")
 add cubit meshset More...
 
DEPRECATED MoFEMErrorCode set_cubit_msId_attribites (const CubitBCType cubit_bc_type, const int ms_id, const std::vector< double > &attributes, const std::string name="")
 set attributes to cubit meshset More...
 
DEPRECATED MoFEMErrorCode set_cubit_msId_attribites_data_structure (const CubitBCType cubit_bc_type, const int ms_id, const GenericAttributeData &data, const std::string name="")
 set (material) data structure to cubit meshset More...
 
DEPRECATED MoFEMErrorCode set_cubit_msId_bc_data_structure (const CubitBCType cubit_bc_type, const int ms_id, const GenericCubitBcData &data)
 set boundary data structure to meshset More...
 
DEPRECATED MoFEMErrorCode delete_cubit_msId (const CubitBCType cubit_bc_type, const int msId)
 delete cubit meshset More...
 
DEPRECATED MoFEMErrorCode get_cubit_msId (const int msId, const CubitBCType cubit_bc_type, const CubitMeshSets **cubit_meshset_ptr)
 get cubit meshset More...
 
DEPRECATED MoFEMErrorCode get_cubit_msId_entities_by_dimension (const int ms_id, const CubitBCType cubit_bc_type, const int dimension, Range &entities, const bool recursive=false)
 
DEPRECATED MoFEMErrorCode get_cubit_msId_entities_by_dimension (const int ms_id, const CubitBCType cubit_bc_type, Range &entities, const bool recursive=false)
 
DEPRECATED MoFEMErrorCode get_cubit_msId_entities_by_dimension (const int msId, const unsigned int cubit_bc_type, const int dimension, Range &entities, const bool recursive=false)
 get entities from CUBIT/meshset of a particular entity dimension More...
 
DEPRECATED MoFEMErrorCode get_cubit_msId_entities_by_dimension (const int msId, const unsigned int cubit_bc_type, Range &entities, const bool recursive=false)
 get entities related to CUBIT/meshset, More...
 
DEPRECATED MoFEMErrorCode get_cubit_msId_meshset (const int msId, const unsigned int cubit_bc_type, EntityHandle &meshset)
 get meshset from CUBIT Id and CUBIT type More...
 
DEPRECATED MoFEMErrorCode get_cubit_meshsets (const unsigned int cubit_bc_type, Range &meshsets)
 get all CUBIT meshsets by CUBIT type More...
 
DEPRECATED MoFEMErrorCode print_cubit_displacement_set () const
 
DEPRECATED MoFEMErrorCode print_cubit_pressure_set () const
 
DEPRECATED MoFEMErrorCode print_cubit_force_set () const
 
DEPRECATED MoFEMErrorCode print_cubit_materials_set () const
 
DEPRECATED MoFEMErrorCode update_meshset_by_entities_children (const EntityHandle parent, const BitRefLevel &child_bit, const EntityHandle child, EntityType child_type, const bool recursive=false, int verb=-1)
 Get child entities form meshset containing parent entities. More...
 
DEPRECATED MoFEMErrorCode update_field_meshset_by_entities_children (const BitRefLevel &child_bit, int verb=-1)
 update fields meshesets by child entities More...
 
DEPRECATED MoFEMErrorCode update_field_meshset_by_entities_children (const std::string name, const BitRefLevel &child_bit, int verb=-1)
 update field mesheset by child entities More...
 
DEPRECATED MoFEMErrorCode update_finite_element_meshset_by_entities_children (const std::string name, const BitRefLevel &child_bit, const EntityType fe_ent_type, int verb=-1)
 update finite element mesheset by child entities More...
 
DEPRECATED MoFEMErrorCode shift_right_bit_ref (const int shift, int verb=-1)
 right shift bit ref level More...
 
DEPRECATED MoFEMErrorCode build_problem (const std::string &name, const bool square_matrix, int verb=-1)
 build problem data structures More...
 
DEPRECATED MoFEMErrorCode build_problem (Problem *problem_ptr, const bool square_matrix, int verb=-1)
 build problem data structures More...
 
DEPRECATED MoFEMErrorCode build_problem_on_distributed_mesh (const std::string &name, const bool square_matrix=true, int verb=-1)
 build problem data structures, assuming that mesh is distributed (collective) More...
 
DEPRECATED MoFEMErrorCode build_problem_on_distributed_mesh (Problem *problem_ptr, const bool square_matrix=true, int verb=-1)
 build problem data structures, assuming that mesh is distributed (collective) More...
 
DEPRECATED MoFEMErrorCode partition_mesh (const Range &ents, const int dim, const int adj_dim, const int n_parts, int verb=-1)
 Set partition tag to each finite element in the problem. More...
 
DEPRECATED MoFEMErrorCode partition_simple_problem (const std::string &name, int verb=-1)
 partition problem dofs More...
 
DEPRECATED MoFEMErrorCode partition_problem (const std::string &name, int verb=-1)
 partition problem dofs (collective) More...
 
DEPRECATED MoFEMErrorCode partition_compose_problem (const std::string &name, const std::string &problem_for_rows, const bool copy_rows, const std::string &problem_for_cols, const bool copy_cols, int verb=-1)
 build indexing and partition problem inheriting indexing and partitioning from two other problems More...
 
DEPRECATED MoFEMErrorCode build_sub_problem (const std::string &out_name, const std::vector< std::string > &fields_row, const std::vector< std::string > &fields_col, const std::string &main_problem, const bool square_matrix=true, int verb=-1)
 build sub problem More...
 
DEPRECATED MoFEMErrorCode partition_ghost_dofs (const std::string &name, int verb=-1)
 determine ghost nodes More...
 
DEPRECATED MoFEMErrorCode partition_finite_elements (const std::string &name, bool part_from_moab=false, int low_proc=-1, int hi_proc=-1, int verb=-1)
 partition finite elements More...
 
DEPRECATED MoFEMErrorCode get_problem_elements_layout (const std::string &name, const std::string &fe_name, PetscLayout *layout, int verb=-1)
 Get layout of elements in the problemIn layout is stored information how many elements is on each processor, for more information look int petsc documentation http://www.mcs.anl.gov/petsc/petsc-current/docs/manualpages/IS/PetscLayoutCreate.html#PetscLayoutCreate More...
 
DEPRECATED MoFEMErrorCode VecCreateSeq (const std::string &name, RowColData rc, Vec *V) const
 create local vector for problem More...
 
DEPRECATED MoFEMErrorCode VecCreateGhost (const std::string &name, RowColData rc, Vec *V) const
 create ghost vector for problem (collective)collective - need to be run on all processors in communicator More...
 
DEPRECATED MoFEMErrorCode ISCreateFromProblemFieldToOtherProblemField (const std::string &x_problem, const std::string &x_field_name, RowColData x_rc, const std::string &y_problem, const std::string &y_field_name, RowColData y_rc, std::vector< int > &idx, std::vector< int > &idy, int verb=-1) const
 create IS for give two problems and field More...
 
DEPRECATED MoFEMErrorCode ISCreateFromProblemFieldToOtherProblemField (const std::string &x_problem, const std::string &x_field_name, RowColData x_rc, const std::string &y_problem, const std::string &y_field_name, RowColData y_rc, IS *ix, IS *iy, int verb=-1) const
 create IS for give two problems and field More...
 
DEPRECATED MoFEMErrorCode ISCreateProblemOrder (const std::string &problem, RowColData rc, int min_order, int max_order, IS *is, int verb=-1) const
 create IS for given order range (collective) More...
 
DEPRECATED MoFEMErrorCode ISCreateProblemFieldAndRank (const std::string &problem, RowColData rc, const std::string &field, int min_coeff_idx, int max_coeff_idx, IS *is, int verb=-1) const
 create IS for given problem, field and rank range (collective) More...
 
DEPRECATED MoFEMErrorCode VecScatterCreate (Vec xin, const std::string &x_problem, const std::string &x_field_name, RowColData x_rc, Vec yin, const std::string &y_problem, const std::string &y_field_name, RowColData y_rc, VecScatter *newctx, int verb=-1) const
 create scatter for vectors form one to another problem (collective)User specify what name of field on one problem is scattered to another. More...
 
DEPRECATED MoFEMErrorCode VecScatterCreate (Vec xin, const std::string &x_problem, RowColData x_rc, Vec yin, const std::string &y_problem, RowColData y_rc, VecScatter *newctx, int verb=-1) const
 create scatter for vectors form one to another problem (collective) More...
 
DEPRECATED MoFEMErrorCode set_local_ghost_vector (const Problem *problem_ptr, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode) const
 set values of vector from/to meshdatabase More...
 
DEPRECATED MoFEMErrorCode set_local_ghost_vector (const std::string &name, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode) const
 set values of vector from/to meshdatabase More...
 
DEPRECATED MoFEMErrorCode set_global_ghost_vector (const Problem *problem_ptr, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode) const
 set values of vector from/to mesh database (collective)collective - need tu be run on all processors in communicator More...
 
DEPRECATED MoFEMErrorCode set_global_ghost_vector (const std::string &name, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode) const
 set values of vector from/to mesh database (collective)collective - need tu be run on all processors in communicator More...
 
DEPRECATED MoFEMErrorCode set_other_local_ghost_vector (const Problem *problem_ptr, const std::string &fiel_name, const std::string &cpy_field_name, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode, int verb=-1)
 Copy vector to field which is not part of the problem. More...
 
DEPRECATED MoFEMErrorCode set_other_local_ghost_vector (const std::string &name, const std::string &field_name, const std::string &cpy_field_name, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode, int verb=-1)
 Copy vector to field which is not part of the problem. More...
 
DEPRECATED MoFEMErrorCode set_other_global_ghost_vector (const Problem *problem_ptr, const std::string &field_name, const std::string &cpy_field_name, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode, int verb=-1)
 Copy vector to field which is not part of the problem (collective)collective - need tu be run on all processors in communicator. More...
 
DEPRECATED MoFEMErrorCode set_other_global_ghost_vector (const std::string &name, const std::string &field_name, const std::string &cpy_field_name, RowColData rc, Vec V, InsertMode mode, ScatterMode scatter_mode, int verb=-1)
 Copy vector to field which is not part of the problem (collective)collective - need tu be run on all processors in communicator. More...
 
DEPRECATED MoFEMErrorCode field_axpy (const double alpha, const std::string &fiel_name_x, const std::string &field_name_y, bool error_if_missing=false, bool creat_if_missing=false)
 axpy fields More...
 
DEPRECATED MoFEMErrorCode field_scale (const double alpha, const std::string &field_name)
 scale field More...
 
DEPRECATED MoFEMErrorCode set_field (const double val, const EntityType type, const std::string &field_name)
 use FieldBlas More...
 
DEPRECATED MoFEMErrorCode set_field (const double val, const EntityType type, const Range &ents, const std::string &field_name)
 set field More...
 
DEPRECATED MoFEMErrorCode get_adjacencies_equality (const EntityHandle from_entiti, const int to_dimension, Range &adj_entities) const
 Get the adjacencies associated with a entity to entities of a specified dimension. \ separate interface, i.e. BitLevelManager. More...
 
DEPRECATED MoFEMErrorCode get_adjacencies_any (const EntityHandle from_entiti, const int to_dimension, Range &adj_entities) const
 Get the adjacencies associated with a entity to entities of a specified dimension.bit ref level of adjacent entities is any of bit ref level of adjacent entities. More...
 
DEPRECATED MoFEMErrorCode get_adjacencies (const Problem *problem_ptr, const EntityHandle *from_entities, const int num_netities, const int to_dimension, Range &adj_entities, const int operation_type=moab::Interface::INTERSECT, const int verb=0) const
 Get the adjacencies associated with a entity to entities of a specified dimension. \ separate interface, i.e. BitLevelManage. More...
 
DEPRECATED MoFEMErrorCode get_adjacencies (const BitRefLevel &bit, const EntityHandle *from_entities, const int num_netities, const int to_dimension, Range &adj_entities, const int operation_type=moab::Interface::INTERSECT, const int verb=0) const
 Get the adjacencies associated with a entity to entities of a specified dimension. \ separate interface, i.e. BitLevelManage. More...
 
DEPRECATED MoFEMErrorCode clear_dofs_fields (const BitRefLevel &bit, const BitRefLevel &mask, int verb=-1)
 
DEPRECATED MoFEMErrorCode clear_ents_fields (const BitRefLevel &bit, const BitRefLevel &mask, int verb=-1)
 
DEPRECATED MoFEMErrorCode clear_finite_elements (const BitRefLevel &bit, const BitRefLevel &mask, int verb=-1)
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_VERTICEs (const Range &nodes, const std::string &name, int verb=-1)
 set field entities on verticesThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_VERTICEs (const EntityHandle meshset, const std::string &name, int verb=-1)
 set field entities on verticesThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_EDGEs (const Range &edges, const std::string &name, int verb=-1)
 set field entities form adjacencies of edgesThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_EDGEs (const EntityHandle meshset, const std::string &name, int verb=-1)
 set field entities form adjacencies of edgesThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_TRIs (const EntityHandle meshset, const std::string &name, int verb=-1)
 set field entities form adjacencies of trianglesThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_TRIs (const Range &tris, const std::string &name, int verb=-1)
 set field entities form adjacencies of trianglesThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_TETs (const EntityHandle meshset, const std::string &name, int verb=-1)
 set field entities from adjacencies of tetrahedronThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_TETs (const Range &tets, const std::string &name, int verb=-1)
 set field entities from adjacencies of tetrahedronThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_QUADs (const Range &quads, const std::string &name, int verb=-1)
 set field entities from adjacencies of quadsThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_QUADs (EntityHandle meshset, const std::string &name, int verb=-1)
 set field entities from adjacencies of quadsThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_PRISMs (const Range &prisms, const std::string &name, int verb=-1)
 set field entities from adjacencies of prismsThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode add_ents_to_field_by_PRISMs (EntityHandle meshset, const std::string &name, int verb=-1)
 set field entities from adjacencies of prismsThe lower dimension entities are added depending on the space type More...
 
DEPRECATED MoFEMErrorCode MatCreateMPIAIJWithArrays (const std::string &name, Mat *Aij, int verb=DEFAULT_VERBOSITY)
 
DEPRECATED MoFEMErrorCode MatCreateMPIAdj_with_Idx_mi_tag (const std::string &name, Mat *Adj, int verb=DEFAULT_VERBOSITY)
 
DEPRECATED MoFEMErrorCode MatCreateSeqAIJWithArrays (const std::string &name, Mat *Aij, PetscInt **i, PetscInt **j, PetscScalar **v, int verb=DEFAULT_VERBOSITY)
 
DEPRECATED MoFEMErrorCode loop_finite_elements (const Problem *problem_ptr, const std::string &fe_name, FEMethod &method, int lower_rank, int upper_rank, MoFEMTypes bh, int verb=DEFAULT_VERBOSITY)
 
DEPRECATED MoFEMErrorCode loop_finite_elements (const std::string &problem_name, const std::string &fe_name, FEMethod &method, int lower_rank, int upper_rank, MoFEMTypes bh, int verb=DEFAULT_VERBOSITY)
 
DEPRECATED MoFEMErrorCode loop_finite_elements (const std::string &problem_name, const std::string &fe_name, FEMethod &method, MoFEMTypes bh, int verb=DEFAULT_VERBOSITY)
 
virtual MoFEMErrorCode loop_finite_elements (const std::string &problem_name, const std::string &fe_name, FEMethod &method, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, int verb=DEFAULT_VERBOSITY)=0
 Make a loop over finite elements. More...
 
virtual MoFEMErrorCode loop_finite_elements (const Problem *problem_ptr, const std::string &fe_name, FEMethod &method, int lower_rank, int upper_rank, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, int verb=DEFAULT_VERBOSITY)=0
 Make a loop over finite elements on partitions from upper to lower rank. More...
 
virtual MoFEMErrorCode loop_finite_elements (const std::string &problem_name, const std::string &fe_name, FEMethod &method, int lower_rank, int upper_rank, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, int verb=DEFAULT_VERBOSITY)=0
 Make a loop over finite elements on partitions from upper to lower rank. More...
 
MoFEMErrorCode resolve_shared_ents (const Problem *problem_ptr, const std::string &fe_name, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode resolve_shared_ents (const std::string &name, const std::string &fe_name, int verb=DEFAULT_VERBOSITY)
 
- Public Member Functions inherited from MoFEM::CoreInterface
- Public Member Functions inherited from MoFEM::UnknownInterface
template<class IFACE >
MoFEMErrorCode registerInterface (const MOFEMuuid &uuid, bool error_if_registration_failed=true)
 Register interface. More...
 
template<class IFACE , bool VERIFY = false>
MoFEMErrorCode getInterface (const MOFEMuuid &uuid, IFACE *&iface) const
 Get interface by uuid and return reference to pointer of interface. More...
 
template<class IFACE >
MoFEMErrorCode getInterface (IFACE *&iface) const
 Get interface refernce to pointer of interface. More...
 
template<class IFACE >
MoFEMErrorCode getInterface (IFACE **const iface) const
 Get interface pointer to pointer of interface. More...
 
template<class IFACE , typename boost::enable_if< boost::is_pointer< IFACE >, int >::type = 0>
IFACE getInterface () const
 Get interface pointer to pointer of interface. More...
 
template<class IFACE , typename boost::enable_if< boost::is_reference< IFACE >, int >::type = 0>
IFACE getInterface () const
 Get reference to interface. More...
 
template<class IFACE >
IFACE * getInterface () const
 Function returning pointer to interface. More...
 
virtual ~UnknownInterface ()
 
virtual MoFEMErrorCode getLibVersion (Version &version) const
 Get library version. More...
 
virtual const MoFEMErrorCode getFileVersion (moab::Interface &moab, Version &version) const
 Get database major version. More...
 
virtual MoFEMErrorCode getInterfaceVersion (Version &version) const
 Get database major version. More...
 
template<>
MoFEMErrorCode getInterface (const MOFEMuuid &uuid, UnknownInterface *&iface) const
 

Private Member Functions

MoFEMErrorCode addProblem (const BitProblemId id, const std::string &name, int verb=DEFAULT_VERBOSITY)
 add problem More...
 
MoFEMErrorCode getTags (int verb=DEFAULT_VERBOSITY)
 Get tag handles. More...
 
MoFEMErrorCode clearMap ()
 Cleaning database. More...
 
MoFEMErrorCode registerSubInterfaces ()
 Register insterfaces. More...
 
BitFieldId getFieldShift ()
 Return unique field Id. More...
 
BitFEId getFEShift ()
 Return unique finite element Id. More...
 
BitProblemId getProblemShift ()
 Return unique problem Id. More...
 
MoFEMErrorCode initialiseDatabaseFromMesh (int verb=DEFAULT_VERBOSITY)
 Initialize database getting information on mesh. More...
 
MoFEMErrorCode getOptions (int verb=DEFAULT_VERBOSITY)
 Get core options from command line. More...
 
template<class IFACE >
MoFEMErrorCode regSubInterface (const MOFEMuuid &uid)
 

Private Attributes

boost::shared_ptr< WrapMPICommwrapMPIComm
 
int verbose
 Verbosity level. More...
 
intfShift
 Ptr to tag handle storing last set bit in field ID. More...
 
intfeShift
 Ptr to tag handle storing last set bit in finite element ID. More...
 
intpShift
 Ptr to tag handle storing last set bit in problem ID. More...
 
boost::ptr_map< unsigned long, UnknownInterfaceiFaces
 Hash map of pointers to interfaces. More...
 
intbuildMoFEM
 keeps flags/semaphores for different stages More...
 
std::string optionsPrefix
 Prefix for options on command line. More...
 
PetscBool initaliseAndBuildField
 
PetscBool initaliseAndBuildFiniteElements
 

Static Private Attributes

static bool isGloballyInitialised = false
 Core base globally initialized. More...
 

Global initialisation and finalisation

static MoFEMErrorCode Initialize (int *argc, char ***args, const char file[], const char help[])
 Initializes the MoFEM database PETSc, MOAB and MPI. More...
 
static MoFEMErrorCode Finalize ()
 Checks for options to be called at the conclusion of the program. More...
 

Assessing interfaces

MoFEMErrorCode query_interface (const MOFEMuuid &uuid, UnknownInterface **iface) const
 Getting interface of core database. More...
 

Get tag handles to data on the mesh

Tag get_th_RefParentHandle () const
 
Tag get_th_RefBitLevel () const
 
Tag get_th_RefBitEdge () const
 
Tag get_th_RefType () const
 

Auxiliary data and functions

enum  SemaphoresBuildMofem {
  BUILD_FIELD = 1 << 0, BUILD_FE = 1 << 1, BUILD_ADJ = 1 << 2, BUILD_PROBLEM = 1 << 3,
  PARTITION_PROBLEM = 1 << 4, PARTITION_FE = 1 << 5, PARTITION_GHOST_DOFS = 1 << 6, PARTITION_MESH = 1 << 7
}
 
intgetBuildMoFEM () const
 Get flags/semaphores for different stages. More...
 
MoFEMErrorCode addPrismToDatabase (const EntityHandle prism, int verb=DEFAULT_VERBOSITY)
 add prim element More...
 

Tags to data on mesh and entities

Tag th_Part
 Tag for partition number. More...
 
Tag th_RefParentHandle
 
Tag th_RefBitLevel
 
Tag th_RefBitLevel_Mask
 
Tag th_RefBitEdge
 
Tag th_RefFEMeshset
 
Tag th_RefType
 
Tag th_FieldId
 
Tag th_FieldName
 
Tag th_FieldName_DataNamePrefix
 
Tag th_FieldSpace
 
Tag th_FieldBase
 
Tag th_FEId
 
Tag th_FEName
 
Tag th_FEIdCol
 
Tag th_FEIdRow
 
Tag th_FEIdData
 
Tag th_ProblemId
 
Tag th_ProblemName
 
Tag th_ProblemFEId
 
Tag th_ProblemNbDofsRow
 
Tag th_ProblemNbDofsCol
 
Tag th_ProblemLocalNbDofRow
 
Tag th_ProblemGhostNbDofRow
 
Tag th_ProblemLocalNbDofCol
 
Tag th_ProblemGhostNbDofCol
 
Tag th_ProblemShift
 
Tag th_FieldShift
 
Tag th_FEShift
 
Tag th_ElemType
 Needed for VTK files. More...
 
Tag th_MoFEMBuild
 
boost::shared_ptr< BasicEntityDatabasicEntityDataPtr
 
boost::shared_ptr< BasicEntityData > & get_basic_entity_data_ptr ()
 Get pointer to basic entity data. More...
 

Multi-Indices accessing data on the mesh

RefEntity_multiIndex refinedEntities
 refined entities More...
 
RefElement_multiIndex refinedFiniteElements
 refined elements More...
 
Field_multiIndex fIelds
 fields More...
 
FieldEntity_multiIndex entsFields
 entities on fields More...
 
DofEntity_multiIndex dofsField
 dofs on fields More...
 
FiniteElement_multiIndex finiteElements
 finite elements More...
 
EntFiniteElement_multiIndex entsFiniteElements
 finite element entities More...
 
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
 adjacencies of elements to dofs More...
 
Problem_multiIndex pRoblems
 problems multi-index More...
 

Get moab database

std::reference_wrapper< moab::Interface > moab
 moab database More...
 
moab::Interface & get_moab ()
 
const moab::Interface & get_moab () const
 
MoFEMErrorCode set_moab_interface (moab::Interface &new_moab, int verb=VERBOSE, const bool distributed_mesh=true)
 Set the moab interface object. More...
 

Check database consistency

MoFEMErrorCode check_number_of_ents_in_ents_field (const std::string &name) const
 check data consistency in entitiesPtr More...
 
MoFEMErrorCode check_number_of_ents_in_ents_field () const
 check data consistency in entitiesPtr More...
 
MoFEMErrorCode check_number_of_ents_in_ents_finite_element (const std::string &name) const
 check data consistency in entsFiniteElements More...
 
MoFEMErrorCode check_number_of_ents_in_ents_finite_element () const
 check data consistency in entsFiniteElements More...
 

Clear database

MoFEMErrorCode clear_database (int verb=DEFAULT_VERBOSITY)
 Clear database. More...
 
MoFEMErrorCode rebuild_database (int verb=DEFAULT_VERBOSITY)
 Clear database and initialize it once again. More...
 

Getting access to meshset manager

MeshsetsManagerget_meshsets_manager_ptr ()
 get MeshsetsManager pointer More...
 
const MeshsetsManagerget_meshsets_manager_ptr () const
 get MeshsetsManager pointer More...
 
MeshsetsManagerget_meshsets_manager ()
 get MeshsetsManager pointer More...
 
const MeshsetsManagerget_meshsets_manager () const
 get MeshsetsManager pointer More...
 

Remove and delete entities

MoFEMErrorCode remove_parents_by_ents (const Range &ents, int verb=DEFAULT_VERBOSITY)
 Remove parents from entities. More...
 
MoFEMErrorCode remove_parents_by_by_bit_ref (const BitRefLevel &bit, const BitRefLevel &mask, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode remove_parents_by_parents (const Range &ents, int verb=DEFAULT_VERBOSITY)
 Remove paremts from entities having parents in passed range. More...
 
MoFEMErrorCode remove_ents (const Range ents, int verb=DEFAULT_VERBOSITY)
 remove entities form mofem database More...
 
MoFEMErrorCode remove_ents_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 remove entities form mofem database More...
 
MoFEMErrorCode delete_ents_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, const bool remove_parent=false, int verb=DEFAULT_VERBOSITY)
 delete entities form mofem and moab database More...
 

Fields

MoFEMErrorCode add_field (const std::string &name, const FieldSpace space, const FieldApproximationBase base, const FieldCoefficientsNumber nb_coefficients, const TagType tag_type=MB_TAG_SPARSE, const enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)
 Add filed. More...
 
MoFEMErrorCode addEntsToFieldByDim (const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode add_ents_to_field_by_dim (const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
 Add entities to field meshset. More...
 
MoFEMErrorCode add_ents_to_field_by_type (const Range &ents, const EntityType type, const std::string &name, int verb=DEFAULT_VERBOSITY)
 Add entities to field meshset. More...
 
MoFEMErrorCode add_ents_to_field_by_dim (const EntityHandle meshset, const int dim, const std::string &name, const bool recursive=true, int verb=DEFAULT_VERBOSITY)
 Add entities to field meshset\not collective. More...
 
MoFEMErrorCode add_ents_to_field_by_type (const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true, int verb=DEFAULT_VERBOSITY)
 Add entities to field meshset. More...
 

Set approximation order

MoFEMErrorCode set_field_order (const Range &ents, const BitFieldId id, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode set_field_order (const EntityHandle meshset, const EntityType type, const BitFieldId id, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode set_field_order (const Range &ents, const std::string &name, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)
 Set order approximation of the entities in the field. More...
 
MoFEMErrorCode set_field_order (const EntityHandle meshset, const EntityType type, const std::string &name, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)
 Set order approximation of the entities in the field. More...
 
MoFEMErrorCode set_field_order_by_entity_type_and_bit_ref (const BitRefLevel &bit, const BitRefLevel &mask, const EntityType type, const BitFieldId id, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode set_field_order_by_entity_type_and_bit_ref (const BitRefLevel &bit, const BitRefLevel &mask, const EntityType type, const std::string &name, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)
 Set order approximation of the entities in the field. More...
 

Build fields

MoFEMErrorCode buildFieldForNoField (const BitFieldId id, std::map< EntityType, int > &dof_counter, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode buildFieldForL2H1HcurlHdiv (const BitFieldId id, std::map< EntityType, int > &dof_counter, std::map< EntityType, int > &inactive_dof_counter, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode buildField (const boost::shared_ptr< Field > &field, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode build_fields (int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode build_field (const std::string field_name, int verb=DEFAULT_VERBOSITY)
 build field by name More...
 

Clear DOFs

MoFEMErrorCode clear_inactive_dofs (int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_dofs_fields_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_dofs_fields (const Range ents, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_dofs_fields (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 

Clear ENTs

MoFEMErrorCode clear_ents_fields_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_ents_fields (const Range ents, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_ents_fields (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 

Remove field entities

MoFEMErrorCode remove_ents_from_field_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 remove entities from field More...
 
MoFEMErrorCode remove_ents_from_field (const std::string name, const EntityHandle meshset, const EntityType type, int verb=DEFAULT_VERBOSITY)
 remove entities from field More...
 
MoFEMErrorCode remove_ents_from_field (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 remove entities from field More...
 
MoFEMErrorCode remove_ents_from_field (const Range ents, int verb=DEFAULT_VERBOSITY)
 remove entities from all fields More...
 

Other auxiliary functions for fields

MoFEMErrorCode list_dofs_by_field_name (const std::string &name) const
 
MoFEMErrorCode list_fields () const
 list entities in the field More...
 
BitFieldId getBitFieldId (const std::string &name) const
 
EntityHandle get_field_meshset (const BitFieldId id) const
 
EntityHandle get_field_meshset (const std::string &name) const
 get field meshset More...
 
MoFEMErrorCode get_field_entities_by_dimension (const std::string name, int dim, Range &ents) const
 get entities in the field by dimension More...
 
MoFEMErrorCode get_field_entities_by_type (const std::string name, EntityType type, Range &ents) const
 get entities in the field by type More...
 
MoFEMErrorCode get_field_entities_by_handle (const std::string name, Range &ents) const
 get entities in the field by handle More...
 
bool check_field (const std::string &name) const
 check if field is in database More...
 
const Fieldget_field_structure (const std::string &name)
 get field structure More...
 

Finite elements

bool check_finite_element (const std::string &name) const
 Check if finite element is in database. More...
 
MoFEMErrorCode add_finite_element (const std::string &fe_name, enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)
 add finite element More...
 
MoFEMErrorCode modify_finite_element_adjacency_table (const std::string &fe_name, const EntityType type, ElementAdjacencyFunct function)
 modify finite element table, only for advanced user More...
 
MoFEMErrorCode modify_finite_element_add_field_data (const std::string &fe_name, const std::string &name_filed)
 set finite element field data More...
 
MoFEMErrorCode modify_finite_element_add_field_row (const std::string &fe_name, const std::string &name_row)
 set field row which finite element use More...
 
MoFEMErrorCode modify_finite_element_add_field_col (const std::string &fe_name, const std::string &name_col)
 set field col which finite element use More...
 
MoFEMErrorCode modify_finite_element_off_field_data (const std::string &fe_name, const std::string &name_filed)
 unset finite element field data More...
 
MoFEMErrorCode modify_finite_element_off_field_row (const std::string &fe_name, const std::string &name_row)
 unset field row which finite element use More...
 
MoFEMErrorCode modify_finite_element_off_field_col (const std::string &fe_name, const std::string &name_col)
 unset field col which finite element use More...
 
MoFEMErrorCode add_ents_to_finite_element_by_type (const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
 add entities to finite element More...
 
MoFEMErrorCode add_ents_to_finite_element_by_dim (const EntityHandle meshset, const int dim, const std::string &name, const bool recursive=true)
 add entities to finite element More...
 
MoFEMErrorCode add_ents_to_finite_element_by_type (const Range &ents, const EntityType type, const std::string &name)
 add entities to finite elements More...
 
MoFEMErrorCode add_ents_to_finite_element_by_dim (const Range &ents, const int dim, const std::string &name)
 add entities to finite elements More...
 
MoFEMErrorCode add_ents_to_finite_element_by_bit_ref (const BitRefLevel &bit, const BitRefLevel &mask, const std::string &name, EntityType type, int verb=DEFAULT_VERBOSITY)
 add TET entities from given refinement level to finite element database given by name More...
 
MoFEMErrorCode add_ents_to_finite_element_by_MESHSET (const EntityHandle meshset, const std::string &name, const bool recursive=false)
 add MESHSET element to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_VERTICEs (const Range &vert, const std::string &name)
 add VERTICES entities from range to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_EDGEs (const Range &vert, const std::string &name)
 add EDGES entities from range to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_EDGEs (const EntityHandle meshset, const std::string &name, const bool recursive=false)
 add EDGES finite elements More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_TRIs (const Range &tris, const std::string &name)
 add TRI entities from range to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_TRIs (const EntityHandle meshset, const std::string &name, const bool recursive=false)
 add TRI entities from meshset to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_TETs (const Range &tets, const std::string &name)
 add TET entities from range to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_TETs (const EntityHandle meshset, const std::string &name, const bool recursive=false)
 add TET entities from meshset to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_PRISMs (const Range &prims, const BitFEId id)
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_PRISMs (const Range &prims, const std::string &name)
 add PRISM entities from meshset to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_by_PRISMs (const EntityHandle meshset, const std::string &name, const bool recursive=false)
 add TET entities from meshset to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_EntType_by_bit_ref (const BitRefLevel &bit, const std::string &name, EntityType type, int verb=DEFAULT_VERBOSITY)
 add TET elements from given refinement level to finite element database given by name More...
 
DEPRECATED MoFEMErrorCode add_ents_to_finite_element_EntType_by_bit_ref (const BitRefLevel &bit, const BitRefLevel &mask, const std::string &name, EntityType type, int verb=DEFAULT_VERBOSITY)
 add TET entities from given refinement level to finite element database given by name More...
 
MoFEMErrorCode remove_ents_from_finite_element_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 remove elements from given refinement level to finite element database More...
 
MoFEMErrorCode remove_ents_from_finite_element (const std::string name, const EntityHandle meshset, const EntityType type, int verb=DEFAULT_VERBOSITY)
 remove entities from given refinement level to finite element database More...
 
MoFEMErrorCode remove_ents_from_finite_element (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 remove entities from finite element database More...
 
MoFEMErrorCode remove_ents_from_finite_element (const Range ents, int verb=DEFAULT_VERBOSITY)
 remove entities from finite elements in database More...
 
MoFEMErrorCode delete_finite_element (const std::string name, int verb=DEFAULT_VERBOSITY)
 delete finite element from mofem database More...
 
BitFEId getBitFEId (const std::string &name) const
 Get field Id. More...
 
std::string getBitFEIdName (const BitFEId id) const
 Get field name. More...
 
EntityHandle get_finite_element_meshset (const BitFEId id) const
 
EntityHandle get_finite_element_meshset (const std::string &name) const
 
MoFEMErrorCode get_finite_element_entities_by_dimension (const std::string name, int dim, Range &ents) const
 get entities in the finite element by dimension More...
 
MoFEMErrorCode get_finite_element_entities_by_type (const std::string name, EntityType type, Range &ents) const
 get entities in the finite element by type More...
 
MoFEMErrorCode get_finite_element_entities_by_handle (const std::string name, Range &ents) const
 get entities in the finite element by handle More...
 
MoFEMErrorCode list_finite_elements () const
 list finite elements in database More...
 

Problems

MoFEMErrorCode add_problem (const std::string &name, enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)
 Add problem. More...
 
bool check_problem (const std::string name)
 check if problem exist More...
 
MoFEMErrorCode delete_problem (const std::string name)
 Delete problem. More...
 
MoFEMErrorCode modify_problem_add_finite_element (const std::string &name_problem, const std::string &MoFEMFiniteElement_name)
 add finite element to problem, this add entities assigned to finite element to a particular problem More...
 
MoFEMErrorCode modify_problem_unset_finite_element (const std::string &name_problem, const std::string &MoFEMFiniteElement_name)
 unset finite element from problem, this remove entities assigned to finite element to a particular problemNote: If problem is build, it need to be cleaned to make this effective More...
 
MoFEMErrorCode modify_problem_ref_level_add_bit (const std::string &name_problem, const BitRefLevel &bit)
 add ref level to problem More...
 
MoFEMErrorCode modify_problem_ref_level_set_bit (const std::string &name_problem, const BitRefLevel &bit)
 set ref level for problem More...
 
MoFEMErrorCode modify_problem_mask_ref_level_add_bit (const std::string &name_problem, const BitRefLevel &bit)
 set dof mask ref level for problem More...
 
MoFEMErrorCode modify_problem_mask_ref_level_set_bit (const std::string &name_problem, const BitRefLevel &bit)
 set dof mask ref level for problem More...
 
BitProblemId getBitProblemId (const std::string &name) const
 
MoFEMErrorCode list_problem () const
 list problems More...
 
MoFEMErrorCode clear_problem (const std::string name, int verb=DEFAULT_VERBOSITY)
 clear problem More...
 
MoFEMErrorCode clear_problems (int verb=DEFAULT_VERBOSITY)
 clear problems More...
 
MoFEMErrorCode build_finite_elements (int verb=DEFAULT_VERBOSITY)
 Build finite elementsBuild finite element data structures. Have to be run before problem and adjacencies are constructed. More...
 
MoFEMErrorCode build_finite_elements (const BitRefLevel &bit, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode build_finite_elements (const string fe_name, const Range *const ents_ptr=nullptr, int verb=DEFAULT_VERBOSITY)
 Build finite elementsBuild finite element data structures. Have to be run before problem and adjacencies are constructed. More...
 
MoFEMErrorCode buildFiniteElements (const boost::shared_ptr< FiniteElement > &fe, const Range *ents_ptr=NULL, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_finite_elements_by_bit_ref (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_finite_elements (const Range ents, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_finite_elements (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode get_problem_finite_elements_entities (const std::string &name, const std::string &fe_name, const EntityHandle meshset)
 add finite elements to the meshset More...
 
DEPRECATED MoFEMErrorCode build_problem_on_distributed_mesh (int verb=DEFAULT_VERBOSITY)
 build problem data structures, assuming that mesh is distributed (collective) More...
 
DEPRECATED MoFEMErrorCode build_problems (int verb=DEFAULT_VERBOSITY)
 build problem data structures More...
 

Adjacencies

MoFEMErrorCode build_adjacencies (const Range &ents, int verb=DEFAULT_VERBOSITY)
 build adjacencies More...
 
MoFEMErrorCode build_adjacencies (const BitRefLevel &bit, int verb=DEFAULT_VERBOSITY)
 build adjacencies More...
 
MoFEMErrorCode build_adjacencies (const BitRefLevel &bit, const BitRefLevel &mask, int verb=DEFAULT_VERBOSITY)
 build adjacencies More...
 
MoFEMErrorCode clear_adjacencies_entities (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 clear adjacency map for entities on given bit level More...
 
MoFEMErrorCode clear_adjacencies_entities (const Range ents, int verb=DEFAULT_VERBOSITY)
 clear adjacencies for field entities by entities More...
 
MoFEMErrorCode clear_adjacencies_entities (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 clear adjacencies for field entities by entities and field namd More...
 
MoFEMErrorCode clear_adjacencies_finite_elements (const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
 clear adjacency map for finite elements on given bit level More...
 
MoFEMErrorCode clear_adjacencies_finite_elements (const Range ents, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode clear_adjacencies_finite_elements (const std::string name, const Range ents, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode list_adjacencies () const
 list adjacencies More...
 

Methods for preforming operations on elements

MoFEMErrorCode problem_basic_method_preProcess (const Problem *problem_ptr, BasicMethod &method, int verb=DEFAULT_VERBOSITY)
 Set data for BasicMethod. More...
 
MoFEMErrorCode problem_basic_method_preProcess (const std::string &problem_name, BasicMethod &method, int verb=DEFAULT_VERBOSITY)
 Set data for BasicMethod. More...
 
MoFEMErrorCode problem_basic_method_postProcess (const Problem *problem_ptr, BasicMethod &method, int verb=DEFAULT_VERBOSITY)
 Set data for BasicMethodThis function set data about problem, adjacencies and other multi-indices in database. This function can be used a special case when user need to do some pre- and post-processing before matrix or vector is initiated, or to assemble matrix for group of FEMethods. Is used by classes SnesCtx and TsCtx. Look for more details there. More...
 
MoFEMErrorCode problem_basic_method_postProcess (const std::string &problem_name, BasicMethod &method, int verb=DEFAULT_VERBOSITY)
 Set data for BasicMethodThis function set data about problem, adjacencies and other multi-indices in database. This function can be used a special case when user need to do some pre- and post-processing before matrix or vector is initiated, or to assemble matrix for group of FEMethods. Is used by classes SnesCtx and TsCtx. Look for more details there. More...
 
MoFEMErrorCode loop_finite_elements (const Problem *problem_ptr, const std::string &fe_name, FEMethod &method, int lower_rank, int upper_rank, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, int verb=DEFAULT_VERBOSITY)
 Make a loop over finite elements on partitions from upper to lower rank. More...
 
MoFEMErrorCode loop_finite_elements (const std::string &problem_name, const std::string &fe_name, FEMethod &method, int lower_rank, int upper_rank, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, int verb=DEFAULT_VERBOSITY)
 Make a loop over finite elements on partitions from upper to lower rank. More...
 
MoFEMErrorCode loop_finite_elements (const std::string &problem_name, const std::string &fe_name, FEMethod &method, boost::shared_ptr< NumeredEntFiniteElement_multiIndex > fe_ptr=nullptr, MoFEMTypes bh=MF_EXIST, int verb=DEFAULT_VERBOSITY)
 Make a loop over finite elements. More...
 
MoFEMErrorCode loop_dofs (const Problem *problem_ptr, const std::string &field_name, RowColData rc, DofMethod &method, int lower_rank, int upper_rank, int verb=DEFAULT_VERBOSITY)
 Make a loop over dofs. More...
 
MoFEMErrorCode loop_dofs (const std::string &problem_name, const std::string &field_name, RowColData rc, DofMethod &method, int lower_rank, int upper_rank, int verb=DEFAULT_VERBOSITY)
 Make a loop over dofs. More...
 
MoFEMErrorCode loop_dofs (const std::string &problem_name, const std::string &field_name, RowColData rc, DofMethod &method, int verb=DEFAULT_VERBOSITY)
 Make a loop over dofs. More...
 
MoFEMErrorCode loop_dofs (const std::string &field_name, DofMethod &method, int verb=DEFAULT_VERBOSITY)
 Make a loop over dofs. More...
 
MoFEMErrorCode loop_entities (const Problem *problem_ptr, const std::string field_name, RowColData rc, EntityMethod &method, int lower_rank, int upper_rank, int verb=DEFAULT_VERBOSITY)
 Loop over field entities in the problem. More...
 
MoFEMErrorCode loop_entities (const std::string problem_name, const std::string field_name, RowColData rc, EntityMethod &method, int lower_rank, int upper_rank, int verb=DEFAULT_VERBOSITY)
 Loop over field entities in the problem. More...
 
MoFEMErrorCode loop_entities (const std::string problem_name, const std::string field_name, RowColData rc, EntityMethod &method, int verb=DEFAULT_VERBOSITY)
 Loop over field entities in the problem. More...
 
MoFEMErrorCode loop_entities (const std::string field_name, EntityMethod &method, Range const *const ents=nullptr, int verb=DEFAULT_VERBOSITY)
 Loop over field entities. More...
 

Accessing multi-indices

MoFEMErrorCode get_fields (const Field_multiIndex **fields_ptr) const
 Get fields multi-index from database. More...
 
MoFEMErrorCode get_ref_ents (const RefEntity_multiIndex **refined_entities_ptr) const
 Get ref entities multi-index from database. More...
 
MoFEMErrorCode get_ref_finite_elements (const RefElement_multiIndex **refined_finite_elements_ptr) const
 Get ref finite elements multi-index form database. More...
 
MoFEMErrorCode get_finite_elements (const FiniteElement_multiIndex **fe_ptr) const
 Get finite elements multi-index. More...
 
MoFEMErrorCode get_ents_finite_elements (const EntFiniteElement_multiIndex **fe_ent_ptr) const
 Get entities finite elements multi-index. More...
 
MoFEMErrorCode get_field_ents (const FieldEntity_multiIndex **field_ents) const
 Get field multi index. More...
 
MoFEMErrorCode get_dofs (const DofEntity_multiIndex **dofs_ptr) const
 Get dofs multi index. More...
 
MoFEMErrorCode get_problem (const std::string &problem_name, const Problem **problem_ptr) const
 Get problem database (data structure) More...
 
MoFEMErrorCode get_problems (const Problem_multiIndex **problems_ptr) const
 Get pointer to problems multi-index. More...
 
FieldEntityByFieldName::iterator get_ent_field_by_name_begin (const std::string &field_name) const
 get begin iterator of filed ents of given name (instead you can use IT_GET_ENT_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT) More...
 
FieldEntityByFieldName::iterator get_ent_field_by_name_end (const std::string &field_name) const
 get begin iterator of filed dofs of given name (instead you can use IT_GET_ENT_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT)for(IT_GET_ENT_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT)) { ... } More...
 
DofEntityByFieldName::iterator get_dofs_by_name_begin (const std::string &field_name) const
 get begin iterator of filed dofs of given name (instead you can use IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT)for(IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT)) { ... } More...
 
DofEntityByFieldName::iterator get_dofs_by_name_end (const std::string &field_name) const
 get begin iterator of filed dofs of given name (instead you can use IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT)for(IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,IT)) { ... } More...
 
DofEntityByNameAndEnt::iterator get_dofs_by_name_and_ent_begin (const std::string &field_name, const EntityHandle ent) const
 get begin iterator of filed dofs of given name and ent(instead you can use IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,ENT,IT) More...
 
DofEntityByNameAndEnt::iterator get_dofs_by_name_and_ent_end (const std::string &field_name, const EntityHandle ent) const
 get begin iterator of filed dofs of given name and ent (instead you can use IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,ENT,IT)for(IT_GET_DOFS_FIELD_BY_NAME_AND_ENT_FOR_LOOP(MFIELD,NAME,ENT,IT)) { ... } More...
 
DofEntityByNameAndType::iterator get_dofs_by_name_and_type_begin (const std::string &field_name, const EntityType type) const
 get begin iterator of filed dofs of given name and ent type (instead you can use IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,TYPE,IT) More...
 
DofEntityByNameAndType::iterator get_dofs_by_name_and_type_end (const std::string &field_name, const EntityType ent) const
 get begin iterator of filed dofs of given name end ent type(instead you can use IT_GET_DOFS_FIELD_BY_NAME_FOR_LOOP(MFIELD,NAME,TYPE,IT) More...
 
EntFiniteElementByName::iterator get_fe_by_name_begin (const std::string &fe_name) const
 get begin iterator of finite elements of given name (instead you can use IT_GET_FES_BY_NAME_FOR_LOOP(MFIELD,NAME,IT) More...
 
EntFiniteElementByName::iterator get_fe_by_name_end (const std::string &fe_name) const
 get end iterator of finite elements of given name (instead you can use IT_GET_FES_BY_NAME_FOR_LOOP(MFIELD,NAME,IT) More...
 

Log events

PetscLogEvent MOFEM_EVENT_preProcess
 Event for preProcess finite element. More...
 
PetscLogEvent MOFEM_EVENT_operator
 Event for evaluating operator of finite element. More...
 
PetscLogEvent MOFEM_EVENT_postProcess
 Event for postProcess finite element. More...
 
PetscLogEvent MOFEM_EVENT_createMat
 

Communicator

MPI_Comm cOmm
 MoFEM communicator. More...
 
ParallelComm * pComm
 MOAB communicator structure. More...
 
int sIze
 MoFEM communicator size. More...
 
int rAnk
 MOFEM communicator rank. More...
 
MPI_Comm & get_comm () const
 
int get_comm_size () const
 
int get_comm_rank () const
 
MoFEMErrorCode resolve_shared_finite_elements (const Problem *problem_ptr, const std::string &fe_name, int verb=DEFAULT_VERBOSITY)
 resolve shared entities for finite elements in the problem More...
 
MoFEMErrorCode resolve_shared_finite_elements (const std::string &name, const std::string &fe_name, int verb=DEFAULT_VERBOSITY)
 resolve shared entities for finite elements in the problem More...
 

Synchronize entities (Following functions in future will be

deprecated)

MoFEMErrorCode synchronise_entities (Range &ent, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode synchronise_field_entities (const BitFieldId id, int verb=DEFAULT_VERBOSITY)
 
MoFEMErrorCode synchronise_field_entities (const std::string &name, int verb=DEFAULT_VERBOSITY)
 

Additional Inherited Members

- Protected Member Functions inherited from MoFEM::UnknownInterface
boost::typeindex::type_index getClassIdx (const MOFEMuuid &uid) const
 Get type name for interface Id. More...
 
MOFEMuuid getUId (const boost::typeindex::type_index &class_idx) const
 Get interface Id for class name. More...
 

Detailed Description

Core (interface) class.

This is the implementation of abstract MoFEM::Interface class. Similarly to the convention used in MoAB, we use small letters to name function of purely abstract classes. This is an exception used only here. For more details about naming functions see Coding practice

This class is not used directly by the user. For internal use only. It is database with basic functions to access data. Abstraction of this is MoFEM Interface structure.

Such deign to hide complexities for users and allow low development without interfering with users modules programmer work.

Todo:
Implement static functions for Initialization and Finalization of MoFEM. Those functions should keep all static variables and initialize/finalize other libs like PETSc. Moreover initialization functions should set error handlers, etc.
Examples
analytical_nonlinear_poisson.cpp, analytical_poisson.cpp, analytical_poisson_field_split.cpp, bone_adaptation.cpp, build_problems.cpp, cell_forces.cpp, cubit_bc_test.cpp, delete_ho_nodes.cpp, dm_build_partitioned_mesh.cpp, dm_create_subdm.cpp, elasticity.cpp, elasticity_mixed_formulation.cpp, ep.cpp, field_axpy_atom_test.cpp, field_blas_set_vertex_dofs.cpp, field_evaluator.cpp, field_to_vertices.cpp, forces_and_sources_testing_edge_element.cpp, forces_and_sources_testing_flat_prism_element.cpp, forces_and_sources_testing_users_base.cpp, hello_world.cpp, loop_entities.cpp, lorentz_force.cpp, magnetostatic.cpp, mesh_cut.cpp, mesh_insert_interface_atom.cpp, mesh_smoothing.cpp, meshset_to_vtk.cpp, minimal_surface_area.cpp, prisms_elements_from_surface.cpp, reaction_diffusion_equation.cpp, remove_entities_from_problem.cpp, simple_elasticity.cpp, simple_interface.cpp, split_sideset.cpp, testing_jacobian_of_hook_element.cpp, testing_jacobian_of_hook_scaled_with_density_element.cpp, and unsaturated_transport.cpp.

Definition at line 50 of file Core.hpp.

Member Enumeration Documentation

◆ SemaphoresBuildMofem

Is used to check consistency. I n future properly this will be removed and replaced by other solution. It is only for internal use.

Enumerator
BUILD_FIELD 
BUILD_FE 
BUILD_ADJ 
BUILD_PROBLEM 
PARTITION_PROBLEM 
PARTITION_FE 
PARTITION_GHOST_DOFS 
PARTITION_MESH 

Definition at line 165 of file Core.hpp.

Constructor & Destructor Documentation

◆ Core()

MoFEM::Core::Core ( moab::Interface &  moab,
MPI_Comm  comm = PETSC_COMM_WORLD,
const int  verbose = VERBOSE,
const bool  distributed_mesh = true 
)

Construct core database

Parameters
moabMoAB interface
commMPI communicator
verboseVerbosity level
distributed_meshUId of entities and dofs depends on owing processor, assumed that mesh is distributed. Otherwise is assumed that all processors have the same meshes and same entity handlers.

Definition at line 106 of file Core.cpp.

108  : moab(moab), cOmm(0), verbose(verbose),
109  initaliseAndBuildField(PETSC_FALSE),
110  initaliseAndBuildFiniteElements(PETSC_FALSE) {
111 
112  // This is deprecated ONE should use MoFEM::Core::Initialize
113  if (!isGloballyInitialised) {
114  PetscPushErrorHandler(mofem_error_handler, PETSC_NULL);
115  isGloballyInitialised = true;
116  }
117 
118  // Create duplicate communicator
119  wrapMPIComm = boost::make_shared<WrapMPIComm>(comm, cOmm);
120  MPI_Comm_size(cOmm, &sIze);
121  MPI_Comm_rank(cOmm, &rAnk);
122  // CHeck if moab has set communicator if not set communicator interbally
123  ParallelComm *pComm = ParallelComm::get_pcomm(&moab, MYPCOMM_INDEX);
124  if (pComm == NULL) {
125  pComm = new ParallelComm(&moab, cOmm);
126  }
127 
128  // Register interfaces for this implementation
129  ierr = registerInterface<UnknownInterface>(IDD_MOFEMUnknown);
130  CHKERRABORT(comm, ierr);
131  ierr = registerInterface<CoreInterface>(IDD_MOFEMCoreInterface);
132  CHKERRABORT(comm, ierr);
133  ierr = registerInterface<DeprecatedCoreInterface>(
135  CHKERRABORT(comm, ierr);
136 
137  // Register sub-interfaces
139  CHKERRABORT(PETSC_COMM_SELF, ierr);
140 
141  // Register MOFEM events in PETSc
142  PetscLogEventRegister("FE_preProcess", 0, &MOFEM_EVENT_preProcess);
143  PetscLogEventRegister("FE_operator", 0, &MOFEM_EVENT_operator);
144  PetscLogEventRegister("FE_postProcess", 0, &MOFEM_EVENT_postProcess);
145  PetscLogEventRegister("MoFEMCreateMat", 0, &MOFEM_EVENT_createMat);
146 
147  // Initialize database
148  ierr = getTags();
149  CHKERRABORT(cOmm, ierr);
150  ierr = clearMap();
151  CHKERRABORT(cOmm, ierr);
152 
153  basicEntityDataPtr = boost::make_shared<BasicEntityData>(moab);
154  if (distributed_mesh)
155  basicEntityDataPtr->setDistributedMesh();
156  else
157  basicEntityDataPtr->unSetDistributedMesh();
158 
160  CHKERRABORT(cOmm, ierr);
162  CHKERRABORT(cOmm, ierr);
163 
164  // Print version
165  if (verbose > QUIET) {
166  char petsc_version[255];
167  ierr = PetscGetVersion(petsc_version, 255);
168  CHKERRABORT(cOmm, ierr);
169  ierr = PetscPrintf(cOmm, "MoFEM version %d.%d.%d (%s %s) \n",
170  MoFEM_VERSION_MAJOR, MoFEM_VERSION_MINOR,
171  MoFEM_VERSION_BUILD, MOAB_VERSION_STRING, petsc_version);
172  CHKERRABORT(cOmm, ierr);
173  ierr = PetscPrintf(cOmm, "git commit id %s\n", GIT_SHA1_NAME);
174  CHKERRABORT(cOmm, ierr);
175  }
176 }
MoFEMErrorCode clearMap()
Cleaning database.
Definition: Core.cpp:246
static const MOFEMuuid IDD_MOFEMCoreInterface
Definition: Interface.hpp:24
int sIze
MoFEM communicator size.
Definition: Core.hpp:845
MoFEMErrorCode initialiseDatabaseFromMesh(int verb=DEFAULT_VERBOSITY)
Initialize database getting information on mesh.
Definition: Core.cpp:574
PetscLogEvent MOFEM_EVENT_postProcess
Event for postProcess finite element.
Definition: Core.hpp:833
boost::shared_ptr< WrapMPIComm > wrapMPIComm
Definition: Core.hpp:903
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
PetscLogEvent MOFEM_EVENT_operator
Event for evaluating operator of finite element.
Definition: Core.hpp:831
static const MOFEMuuid IDD_MOFEMUnknown
PetscLogEvent MOFEM_EVENT_createMat
Definition: Core.hpp:834
MoFEMErrorCode registerSubInterfaces()
Register insterfaces.
Definition: Core.cpp:189
std::reference_wrapper< moab::Interface > moab
moab database
Definition: Core.hpp:265
PetscLogEvent MOFEM_EVENT_preProcess
Event for preProcess finite element.
Definition: Core.hpp:829
PetscBool initaliseAndBuildField
Definition: Core.hpp:921
int rAnk
MOFEM communicator rank.
Definition: Core.hpp:846
MoFEMErrorCode getOptions(int verb=DEFAULT_VERBOSITY)
Get core options from command line.
Definition: Core.cpp:549
MoFEMErrorCode getTags(int verb=DEFAULT_VERBOSITY)
Get tag handles.
Definition: Core.cpp:295
static bool isGloballyInitialised
Core base globally initialized.
Definition: Core.hpp:917
PetscBool initaliseAndBuildFiniteElements
Definition: Core.hpp:924
boost::shared_ptr< BasicEntityData > basicEntityDataPtr
Definition: Core.hpp:225
#define MYPCOMM_INDEX
default communicator number PCOMM
Definition: definitions.h:284
static PetscErrorCode mofem_error_handler(MPI_Comm comm, int line, const char *fun, const char *file, PetscErrorCode n, PetscErrorType p, const char *mess, void *ctx)
ParallelComm * pComm
MOAB communicator structure.
Definition: Core.hpp:843
int verbose
Verbosity level.
Definition: Core.hpp:905
static const MOFEMuuid IDD_MOFEMDeprecatedCoreInterface
Definition: Interface.hpp:26

◆ ~Core()

MoFEM::Core::~Core ( )

Definition at line 178 of file Core.cpp.

178  {
179  PetscBool is_finalized;
180  PetscFinalized(&is_finalized);
181  // Destroy interfaces
182  iFaces.clear();
183  // This is deprecated ONE should use MoFEM::Core::Initialize
184  if (isGloballyInitialised && is_finalized) {
185  isGloballyInitialised = false;
186  }
187 }
static bool isGloballyInitialised
Core base globally initialized.
Definition: Core.hpp:917
boost::ptr_map< unsigned long, UnknownInterface > iFaces
Hash map of pointers to interfaces.
Definition: Core.hpp:914

Member Function Documentation

◆ add_ents_to_field_by_dim() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_field_by_dim ( const Range &  ents,
const int  dim,
const std::string &  name,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Add entities to field meshset.

Note
not collective

The lower dimension entities are added depending on the space type

Parameters
entsrange of entities
dimdimension of entities
namename of field
verbverbosity level
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 268 of file FieldCore.cpp.

270  {
271  Range ents_dim = ents.subset_by_dimension(dim);
272  return addEntsToFieldByDim(ents_dim, dim, name, verb);
273 }
MoFEMErrorCode addEntsToFieldByDim(const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:189

◆ add_ents_to_field_by_dim() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_field_by_dim ( const EntityHandle  meshset,
const int  dim,
const std::string &  name,
const bool  recursive = true,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Add entities to field meshset\not collective.

The lower dimension entities are added depending on the space type

Parameters
meshset
dimdimension
namename of field
recursivetake entities recursively from embedded entities
verbverbosity level
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 288 of file FieldCore.cpp.

291  {
293  Range ents;
294  CHKERR get_moab().get_entities_by_dimension(meshset, dim, ents, recursive);
295  CHKERR addEntsToFieldByDim(ents, dim, name, verb);
297 }
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode addEntsToFieldByDim(const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:189

◆ add_ents_to_field_by_type() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_field_by_type ( const Range &  ents,
const EntityType  type,
const std::string &  name,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Add entities to field meshset.

Note
not collective

The lower dimension entities are added depending on the space type

Parameters
entsrange of entities
typetype of entities
namename of field
verbverbosity level
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 275 of file FieldCore.cpp.

278  {
280  Range ents_type = ents.subset_by_type(type);
281  if (!ents_type.empty()) {
282  const int dim = get_moab().dimension_from_handle(ents_type[0]);
283  CHKERR addEntsToFieldByDim(ents_type, dim, name, verb);
284  }
286 }
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode addEntsToFieldByDim(const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:189
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_field_by_type() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_field_by_type ( const EntityHandle  meshset,
const EntityType  type,
const std::string &  name,
const bool  recursive = true,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Add entities to field meshset.

Note
not collective

The lower dimension entities are added depending on the space type

Parameters
meshset
typeof entities
namename of field
recursivetake entities recursively from embedded entities
verbverbosity level
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 299 of file FieldCore.cpp.

302  {
304  Range ents;
305  CHKERR get_moab().get_entities_by_type(meshset, type, ents, recursive);
306  if (!ents.empty()) {
307  const int dim = get_moab().dimension_from_handle(ents[0]);
308  CHKERR addEntsToFieldByDim(ents, dim, name, verb);
309  }
311 }
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode addEntsToFieldByDim(const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:189
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_bit_ref()

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_bit_ref ( const BitRefLevel bit,
const BitRefLevel mask,
const std::string &  name,
EntityType  type,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

add TET entities from given refinement level to finite element database given by name

Note
not collective
Parameters
BitRefLevelbit
BitRefLevelmask
finiteelement name
finiteelement type
verboselevel

Implements MoFEM::CoreInterface.

Definition at line 463 of file FECore.cpp.

465  {
467 
468  if (verb == -1)
469  verb = verbose;
470  *buildMoFEM &= 1 << 0;
471  const BitFEId id = getBitFEId(name);
473  typedef RefElement_multiIndex::index<EntType_mi_tag>::type refMoabFE_by_type;
474  refMoabFE_by_type &ref_MoFEMFiniteElement =
475  refinedFiniteElements.get<EntType_mi_tag>();
476  refMoabFE_by_type::iterator miit = ref_MoFEMFiniteElement.lower_bound(type);
477  refMoabFE_by_type::iterator hi_miit =
478  ref_MoFEMFiniteElement.upper_bound(type);
479  if (verb > 1) {
480  PetscSynchronizedPrintf(cOmm, "nb. ref elements in database %d\n",
481  std::distance(miit, hi_miit));
482  }
483  int nb_add_FEs = 0;
484  for (; miit != hi_miit; miit++) {
485  BitRefLevel bit2 = miit->get()->getBitRefLevel();
486  if ((bit2 & mask) != bit2)
487  continue;
488  if ((bit2 & bit).any()) {
489  EntityHandle ent = miit->get()->getRefEnt();
490  CHKERR get_moab().add_entities(idm, &ent, 1);
491  nb_add_FEs++;
492  }
493  }
494  if (verb > 0) {
495  std::ostringstream ss;
496  ss << "Add Nb. FEs " << nb_add_FEs << " form BitRef " << bit << std::endl;
497  PetscSynchronizedPrintf(cOmm, "%s", ss.str().c_str());
498  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
499  }
500 
502 }
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
BitFEId getBitFEId(const std::string &name) const
Get field Id.
Definition: FECore.cpp:240
std::bitset< BITFEID_SIZE > BitFEId
Finite element Id.
Definition: Types.hpp:54
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
RefElement_multiIndex refinedFiniteElements
refined elements
Definition: Core.hpp:245
#define CHKERR
Inline error check.
Definition: definitions.h:595
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition: Types.hpp:51
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_dim() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_dim ( const EntityHandle  entities,
const int  dim,
const std::string &  name,
const bool  recursive = true 
)
protectedvirtual

add entities to finite element

Note
not collective
Parameters
entitiesmeshset or range form were entities taken
dimdimension
namename of field
recursivetake entities from meshsets in meshset
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 344 of file FECore.cpp.

346  {
347  EntityHandle idm = no_handle;
348  *buildMoFEM &= 1 << 0;
351  Range ents;
352  CHKERR get_moab().get_entities_by_dimension(meshset, dim, ents, recursive);
353  CHKERR getInterface<BitRefManager>()->setElementsBitRefLevel(ents);
354  CHKERR get_moab().add_entities(idm, ents);
356 }
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
const EntityHandle no_handle
No entity handle is indicated by zero handle, i.e. root meshset.
Definition: Common.hpp:27
BitFEId getBitFEId(const std::string &name) const
Get field Id.
Definition: FECore.cpp:240
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_dim() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_dim ( const Range &  ents,
const int  dim,
const std::string &  name 
)
protectedvirtual

add entities to finite elements

Note
not collective
Parameters
entsrange of entities
dimdimension of entities
namename of finite element
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 371 of file FECore.cpp.

372  {
373  EntityHandle idm = no_handle;
374  *buildMoFEM &= 1 << 0;
377  CHKERR getInterface<BitRefManager>()->setElementsBitRefLevel(
378  ents.subset_by_dimension(dim));
379  CHKERR get_moab().add_entities(idm, ents.subset_by_dimension(dim));
381 }
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
const EntityHandle no_handle
No entity handle is indicated by zero handle, i.e. root meshset.
Definition: Common.hpp:27
BitFEId getBitFEId(const std::string &name) const
Get field Id.
Definition: FECore.cpp:240
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_EDGEs() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_EDGEs ( const Range &  edge,
const std::string &  name 
)
protectedvirtual

add EDGES entities from range to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
rangecontains tetrahedron
nameFinite Element name

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 390 of file FECore.cpp.

391  {
393  CHKERR add_ents_to_finite_element_by_type(edges, MBEDGE, name);
395 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_EDGEs() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_EDGEs ( const EntityHandle  meshset,
const std::string &  name,
const bool  recursive = false 
)
protectedvirtual

add EDGES finite elements

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
meshset
namename of finite element
recursivetake entities from meshsets in meshset
Returns
error code

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 383 of file FECore.cpp.

384  {
386  CHKERR add_ents_to_finite_element_by_type(meshset, MBEDGE, name, recursive);
388 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_MESHSET()

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_MESHSET ( const EntityHandle  meshset,
const std::string &  name,
const bool  recursive = false 
)
protectedvirtual

add MESHSET element to finite element database given by name

Note
not collective
Parameters
meshsetcontains all entities that could be used for finite element
nameFinite Element name

Implements MoFEM::CoreInterface.

Definition at line 504 of file FECore.cpp.

505  {
507  *buildMoFEM &= 1 << 0;
508  const BitFEId id = getBitFEId(name);
510  if (recursive == false) {
511  CHKERR get_moab().add_entities(idm, &meshset, 1);
512  } else {
513  Range meshsets;
514  CHKERR get_moab().get_entities_by_type(meshset, MBENTITYSET, meshsets,
515  false);
516  CHKERR get_moab().add_entities(idm, meshsets);
517  }
519 }
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
BitFEId getBitFEId(const std::string &name) const
Get field Id.
Definition: FECore.cpp:240
std::bitset< BITFEID_SIZE > BitFEId
Finite element Id.
Definition: Types.hpp:54
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_PRISMs() [1/3]

DEPRECATED MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_PRISMs ( const Range &  prims,
const BitFEId  id 
)
protected

◆ add_ents_to_finite_element_by_PRISMs() [2/3]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_PRISMs ( const Range &  prims,
const std::string &  name 
)
protectedvirtual

add PRISM entities from meshset to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
rangecontains tetrahedron
nameFinite Element name

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 430 of file FECore.cpp.

431  {
433  CHKERR add_ents_to_finite_element_by_type(prims, MBPRISM, name);
435 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_PRISMs() [3/3]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_PRISMs ( const EntityHandle  meshset,
const std::string &  name,
const bool  recursive = false 
)
protectedvirtual

add TET entities from meshset to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
meshsetcontains tetrahedron
nameFinite Element name
recursiveif true parent meshset is searched recursively

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 436 of file FECore.cpp.

437  {
439  CHKERR add_ents_to_finite_element_by_type(meshset, MBPRISM, name, recursive);
441 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_TETs() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_TETs ( const Range &  tets,
const std::string &  name 
)
protectedvirtual

add TET entities from range to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
rangecontains tetrahedron
nameFinite Element name

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 417 of file FECore.cpp.

418  {
420  CHKERR add_ents_to_finite_element_by_type(tets, MBTET, name);
422 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_TETs() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_TETs ( const EntityHandle  meshset,
const std::string &  name,
const bool  recursive = false 
)
protectedvirtual

add TET entities from meshset to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
meshsetcontains tetrahedron
nameFinite Element name
recursiveif true parent meshset is searched recursively

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 423 of file FECore.cpp.

424  {
426  CHKERR add_ents_to_finite_element_by_type(meshset, MBTET, name, recursive);
428 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_TRIs() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_TRIs ( const Range &  tris,
const std::string &  name 
)
protectedvirtual

add TRI entities from range to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
rangecontains tetrahedron
nameFinite Element name

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 404 of file FECore.cpp.

405  {
407  CHKERR add_ents_to_finite_element_by_type(tris, MBTRI, name);
409 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_TRIs() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_TRIs ( const EntityHandle  meshset,
const std::string &  name,
const bool  recursive = false 
)
protectedvirtual

add TRI entities from meshset to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
rangecontains tetrahedron
nameFinite Element name
recursiveif true parent meshset is searched recursively

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 410 of file FECore.cpp.

411  {
413  CHKERR add_ents_to_finite_element_by_type(meshset, MBTRI, name, recursive);
415 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_type() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_type ( const EntityHandle  entities,
const EntityType  type,
const std::string &  name,
const bool  recursive = true 
)
protectedvirtual

add entities to finite element

Note
not collective
Parameters
entitiesmeshset or range form were entities taken
typetype of entity
namename of field
recursivetake entities from meshsets in meshset
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 327 of file FECore.cpp.

329  {
330  *buildMoFEM &= 1 << 0;
331  EntityHandle idm = no_handle;
333 
335  Range ents;
336  CHKERR get_moab().get_entities_by_type(meshset, type, ents, recursive);
337  CHKERR getInterface<BitRefManager>()->setElementsBitRefLevel(ents);
338  CHKERR get_moab().add_entities(idm, ents);
339 
341 }
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
const EntityHandle no_handle
No entity handle is indicated by zero handle, i.e. root meshset.
Definition: Common.hpp:27
BitFEId getBitFEId(const std::string &name) const
Get field Id.
Definition: FECore.cpp:240
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_type() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_type ( const Range &  ents,
const EntityType  type,
const std::string &  name 
)
protectedvirtual

add entities to finite elements

Note
not collective
Parameters
entsrange of entities
typetype of entity (MBVERTEX, MBEDGE, MBTRI, ...)
namename of finite element
Returns
error code

Implements MoFEM::CoreInterface.

Definition at line 358 of file FECore.cpp.

359  {
360  EntityHandle idm = no_handle;
361  *buildMoFEM &= 1 << 0;
364  CHKERR getInterface<BitRefManager>()->setElementsBitRefLevel(
365  ents.subset_by_type(type));
366  CHKERR get_moab().add_entities(idm, ents.subset_by_type(type));
368 } // namespace MoFEM
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
const EntityHandle no_handle
No entity handle is indicated by zero handle, i.e. root meshset.
Definition: Common.hpp:27
BitFEId getBitFEId(const std::string &name) const
Get field Id.
Definition: FECore.cpp:240
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_by_VERTICEs()

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_by_VERTICEs ( const Range &  vert,
const std::string &  name 
)
protectedvirtual

add VERTICES entities from range to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_type
Parameters
rangecontains tetrahedron
nameFinite Element name

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 397 of file FECore.cpp.

398  {
400  CHKERR add_ents_to_finite_element_by_type(vert, MBVERTEX, name);
402 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle meshset, const EntityType type, const std::string &name, const bool recursive=true)
add entities to finite element
Definition: FECore.cpp:327
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_EntType_by_bit_ref() [1/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_EntType_by_bit_ref ( const BitRefLevel bit,
const std::string &  name,
EntityType  type,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

add TET elements from given refinement level to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_bit_ref with mask explicitly given
Parameters
BitRefLevelbit
finiteelement name
finiteelenent type
verrboselevel

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 444 of file FECore.cpp.

446  {
449  type, verb);
450 
452 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode add_ents_to_finite_element_by_bit_ref(const BitRefLevel &bit, const BitRefLevel &mask, const std::string &name, EntityType type, int verb=DEFAULT_VERBOSITY)
add TET entities from given refinement level to finite element database given by name
Definition: FECore.cpp:463
#define CHKERR
Inline error check.
Definition: definitions.h:595
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition: Types.hpp:51
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_ents_to_finite_element_EntType_by_bit_ref() [2/2]

MoFEMErrorCode MoFEM::Core::add_ents_to_finite_element_EntType_by_bit_ref ( const BitRefLevel bit,
const BitRefLevel mask,
const std::string &  name,
EntityType  type,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

add TET entities from given refinement level to finite element database given by name

Deprecated:
use add_ents_to_finite_element_by_bit_ref with mask explicitly given
Parameters
BitRefLevelbit
BitRefLevelmask
finiteelement name
finiteelement type
verrboselevel

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 454 of file FECore.cpp.

456  {
458  CHKERR add_ents_to_finite_element_by_bit_ref(bit, mask, name, type, verb);
459 
461 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode add_ents_to_finite_element_by_bit_ref(const BitRefLevel &bit, const BitRefLevel &mask, const std::string &name, EntityType type, int verb=DEFAULT_VERBOSITY)
add TET entities from given refinement level to finite element database given by name
Definition: FECore.cpp:463
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_field()

MoFEMErrorCode MoFEM::Core::add_field ( const std::string &  name,
const FieldSpace  space,
const FieldApproximationBase  base,
const FieldCoefficientsNumber  nb_coefficients,
const TagType  tag_type = MB_TAG_SPARSE,
const enum MoFEMTypes  bh = MF_EXCL,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Add filed.

Parameters
nameField name
spaceSpace L2,H1,Hdiv,Hcurl
baseApproximation base AINSWORTH_LEGENDRE_BASE, AINSWORTH_BERNSTEIN_BEZIER_BASE ...
nb_coefficientsNumber of field coefficients
tag_typeTag type, MB_TAG_DENSE or MB_TAG_SPARSE (default)
bhControl behavior, if MF_EXCL throws error if exist
verbVerbosity level
Returns
Return error code

TODO:

Todo:
MB_TAG_DENSE will not work properly in general case. It is need to separate field tags for each entity separately. That will allow for HO orders but homogenous approx. order on each entity. Need some discussion what is optimal solution. MB_TAG_SPARSE gives flexibility, but it not memory efficient. MB_TAG_DENSE uses memory more efficient and in principle allow for better efficiency if properly utilized.

FIXME:

Bug:
Need to resolve problem of dense tags at this stage of development will make only problems

Implements MoFEM::CoreInterface.

Definition at line 91 of file FieldCore.cpp.

95  {
97  if (verb == -1)
98  verb = verbose;
99  *buildMoFEM = 0;
100  auto fit = fIelds.get<FieldName_mi_tag>().find(name);
101  if (fit != fIelds.get<FieldName_mi_tag>().end()) {
102  if (bh == MF_EXCL) {
103  SETERRQ1(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
104  "field is <%s> in database", name.c_str());
105  }
106  } else {
107  EntityHandle meshset;
108  CHKERR get_moab().create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER,
109  meshset);
110  // id
111  BitFieldId id = getFieldShift();
112  CHKERR get_moab().tag_set_data(th_FieldId, &meshset, 1, &id);
113  // space
114  CHKERR get_moab().tag_set_data(th_FieldSpace, &meshset, 1, &space);
115  // base
116  CHKERR get_moab().tag_set_data(th_FieldBase, &meshset, 1, &base);
117 
118  // name
119  void const *tag_data[] = {name.c_str()};
120  int tag_sizes[1];
121  tag_sizes[0] = name.size();
122  CHKERR get_moab().tag_set_by_ptr(th_FieldName, &meshset, 1, tag_data,
123  tag_sizes);
124  // name data prefix
125  const std::string name_data_prefix("_App_Data");
126  void const *tag_prefix_data[] = {name_data_prefix.c_str()};
127  int tag_prefix_sizes[1];
128  tag_prefix_sizes[0] = name_data_prefix.size();
129  CHKERR get_moab().tag_set_by_ptr(th_FieldName_DataNamePrefix, &meshset, 1,
130  tag_prefix_data, tag_prefix_sizes);
131  Tag th_app_order, th_field_data, th_field_data_vert, th_rank;
132  // data
133  std::string tag_data_name = name_data_prefix + name;
134  const int def_len = 0;
135  CHKERR get_moab().tag_get_handle(
136  tag_data_name.c_str(), def_len, MB_TYPE_DOUBLE, th_field_data,
137  MB_TAG_CREAT | MB_TAG_VARLEN | MB_TAG_SPARSE, NULL);
138  std::string tag_data_name_verts = name_data_prefix + name + "V";
139  VectorDouble def_vert_data(nb_of_coefficients);
140  def_vert_data.clear();
141  CHKERR get_moab().tag_get_handle(
142  tag_data_name_verts.c_str(), nb_of_coefficients, MB_TYPE_DOUBLE,
143  th_field_data_vert, MB_TAG_CREAT | tag_type, &*def_vert_data.begin());
144  // order
145  ApproximationOrder def_ApproximationOrder = -1;
146  const std::string Tag_ApproximationOrder_name = "_App_Order_" + name;
147  CHKERR get_moab().tag_get_handle(
148  Tag_ApproximationOrder_name.c_str(), 1, MB_TYPE_INTEGER, th_app_order,
149  MB_TAG_CREAT | tag_type, &def_ApproximationOrder);
150  // rank
151  int def_rank = 1;
152  const std::string tag_rank_name = "_Field_Rank_" + name;
153  CHKERR get_moab().tag_get_handle(tag_rank_name.c_str(), 1, MB_TYPE_INTEGER,
154  th_rank, MB_TAG_CREAT | MB_TAG_SPARSE,
155  &def_rank);
156  CHKERR get_moab().tag_set_data(th_rank, &meshset, 1, &nb_of_coefficients);
157 
158  // add meshset
159  std::pair<Field_multiIndex::iterator, bool> p;
160  CoordSystemsManager *cs_manger_ptr;
161  CHKERR getInterface(cs_manger_ptr);
162  boost::shared_ptr<CoordSys> undefined_cs_ptr;
163  CHKERR cs_manger_ptr->getCoordSysPtr("UNDEFINED", undefined_cs_ptr);
164  int sys_name_size[1];
165  sys_name_size[0] = undefined_cs_ptr->getName().size();
166  void const *sys_name[] = {&*undefined_cs_ptr->getNameRef().begin()};
167  CHKERR get_moab().tag_set_by_ptr(cs_manger_ptr->get_th_CoordSysName(),
168  &meshset, 1, sys_name, sys_name_size);
169  EntityHandle coord_sys_id = undefined_cs_ptr->getMeshset();
170  CHKERR get_moab().add_entities(coord_sys_id, &meshset, 1);
171  p = fIelds.insert(
172  boost::make_shared<Field>(moab, meshset, undefined_cs_ptr));
173  if (bh == MF_EXCL) {
174  if (!p.second)
175  SETERRQ1(PETSC_COMM_SELF, MOFEM_NOT_FOUND,
176  "field not inserted %s (top tip, it could be already there)",
177  Field(moab, meshset, undefined_cs_ptr).getName().c_str());
178  }
179  if (verb > QUIET) {
180  std::ostringstream ss;
181  ss << "add: " << **p.first << std::endl;
182  PetscPrintf(cOmm, ss.str().c_str());
183  }
184  }
185 
187 }
Tag th_FieldSpace
Definition: Core.hpp:204
Tag th_FieldName_DataNamePrefix
Definition: Core.hpp:204
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
int ApproximationOrder
Approximation on the entity.
Definition: Types.hpp:37
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
IFACE getInterface() const
Get interface pointer to pointer of interface.
std::reference_wrapper< moab::Interface > moab
moab database
Definition: Core.hpp:265
Tag th_FieldId
Definition: Core.hpp:204
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
Tag th_FieldBase
Definition: Core.hpp:204
Tag th_FieldName
Definition: Core.hpp:204
std::bitset< BITFIELDID_SIZE > BitFieldId
Field Id.
Definition: Types.hpp:53
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
ublas::vector< double, DoubleAllocator > VectorDouble
Definition: Types.hpp:76
BitFieldId getFieldShift()
Return unique field Id.
Definition: Core.cpp:224

◆ add_finite_element()

MoFEMErrorCode MoFEM::Core::add_finite_element ( const std::string &  fe_name,
enum MoFEMTypes  bh = MF_EXCL,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

add finite element

Parameters
namefinite element name
Note
add_file is a collective, should be executed on all processors. Otherwise could lead to deadlock.

Example

CHKERR mField.add_finite_element("ELASTIC");
CHKERR mField.add_finite_element("PLASTIC");

Implements MoFEM::CoreInterface.

Definition at line 45 of file FECore.cpp.

46  {
48  *buildMoFEM &= 1 << 0;
49  if (verb == -1) {
50  verb = verbose;
51  }
52  typedef FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type
53  FiniteElements_by_name;
54  FiniteElements_by_name &finite_element_name_set =
55  finiteElements.get<FiniteElement_name_mi_tag>();
56  FiniteElements_by_name::iterator it_fe =
57  finite_element_name_set.find(fe_name);
58  if (bh == MF_EXCL) {
59  if (it_fe != finite_element_name_set.end()) {
60  SETERRQ1(cOmm, MOFEM_NOT_FOUND, "this < %s > is there", fe_name.c_str());
61  }
62  } else {
63  if (it_fe != finite_element_name_set.end())
65  }
66  EntityHandle meshset;
67  CHKERR get_moab().create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, meshset);
68 
69  // id
70  BitFEId id = getFEShift();
71  CHKERR get_moab().tag_set_data(th_FEId, &meshset, 1, &id);
72 
73  // id name
74  void const *tag_data[] = {fe_name.c_str()};
75  int tag_sizes[1];
76  tag_sizes[0] = fe_name.size();
77  CHKERR get_moab().tag_set_by_ptr(th_FEName, &meshset, 1, tag_data, tag_sizes);
78 
79  // add FiniteElement
80  std::pair<FiniteElement_multiIndex::iterator, bool> p = finiteElements.insert(
81  boost::shared_ptr<FiniteElement>(new FiniteElement(moab, meshset)));
82  if (!p.second)
83  SETERRQ(cOmm, MOFEM_OPERATION_UNSUCCESSFUL, "FiniteElement not inserted");
84  if (verb > 0) {
85  std::ostringstream ss;
86  ss << "add finite element: " << fe_name << std::endl;
87  PetscPrintf(cOmm, ss.str().c_str());
88  // list_finiteElements();
89  }
91 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
Tag th_FEName
Definition: Core.hpp:206
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
std::reference_wrapper< moab::Interface > moab
moab database
Definition: Core.hpp:265
std::bitset< BITFEID_SIZE > BitFEId
Finite element Id.
Definition: Types.hpp:54
BitFEId getFEShift()
Return unique finite element Id.
Definition: Core.cpp:236
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
Tag th_FEId
Definition: Core.hpp:206
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ add_problem()

MoFEMErrorCode MoFEM::Core::add_problem ( const std::string &  name,
enum MoFEMTypes  bh = MF_EXCL,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Add problem.

Note
add_file is a collective, should be executed on all processors. Otherwise could lead to deadlock.

Implements MoFEM::CoreInterface.

Definition at line 56 of file ProblemsCore.cpp.

57  {
59  if (verb == -1)
60  verb = verbose;
61  auto miit = pRoblems.get<Problem_mi_tag>().find(name);
62  if (miit == pRoblems.get<Problem_mi_tag>().end()) {
64  CHKERR addProblem(id, name, verb);
65  } else if (bh == MF_EXCL) {
66  SETERRQ1(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "problem is in database %s",
67  name.c_str());
68  }
70 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
std::bitset< BITPROBLEMID_SIZE > BitProblemId
Problem Id.
Definition: Types.hpp:55
BitProblemId getProblemShift()
Return unique problem Id.
Definition: Core.cpp:241
MoFEMErrorCode addProblem(const BitProblemId id, const std::string &name, int verb=DEFAULT_VERBOSITY)
add problem
Problem_multiIndex pRoblems
problems multi-index
Definition: Core.hpp:257
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ addEntsToFieldByDim()

MoFEMErrorCode MoFEM::Core::addEntsToFieldByDim ( const Range &  ents,
const int  dim,
const std::string &  name,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 189 of file FieldCore.cpp.

190  {
191 
192  *buildMoFEM = 0;
193  EntityHandle idm = no_handle;
194  if (verb == -1)
195  verb = verbose;
197  idm = get_field_meshset(name);
198  FieldSpace space;
199  CHKERR get_moab().tag_get_data(th_FieldSpace, &idm, 1, &space);
200  std::vector<int> nb_ents_on_dim(3, 0);
201  switch (space) {
202  case L2:
203  CHKERR get_moab().add_entities(idm, ents);
204  if (verb >= VERY_VERBOSE) {
205  std::ostringstream ss;
206  ss << "add entities to field " << name;
207  ss << " nb. add ents " << ents.size();
208  ss << std::endl;
209  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
210  }
211  break;
212  case H1:
213  CHKERR get_moab().add_entities(idm, ents);
214  for (int dd = 0; dd != dim; ++dd) {
215  Range adj_ents;
216  CHKERR get_moab().get_adjacencies(ents, dd, false, adj_ents,
217  moab::Interface::UNION);
218  if (dd == 0) {
219  Range topo_nodes;
220  CHKERR get_moab().get_connectivity(ents, topo_nodes, true);
221  Range mid_nodes;
222  CHKERR get_moab().get_connectivity(ents, mid_nodes, false);
223  mid_nodes = subtract(mid_nodes, topo_nodes);
224  adj_ents = subtract(adj_ents, mid_nodes);
225  }
226  CHKERR get_moab().add_entities(idm, adj_ents);
227  nb_ents_on_dim[dd] = adj_ents.size();
228  }
229  break;
230  case HCURL:
231  CHKERR get_moab().add_entities(idm, ents);
232  for (int dd = 1; dd != dim; ++dd) {
233  Range adj_ents;
234  CHKERR get_moab().get_adjacencies(ents, dd, false, adj_ents,
235  moab::Interface::UNION);
236  CHKERR get_moab().add_entities(idm, adj_ents);
237  nb_ents_on_dim[dd] = adj_ents.size();
238  }
239  break;
240  case HDIV:
241  CHKERR get_moab().add_entities(idm, ents);
242  if (dim > 2) {
243  Range adj_ents;
244  CHKERR get_moab().get_adjacencies(ents, 2, false, adj_ents,
245  moab::Interface::UNION);
246  CHKERR get_moab().add_entities(idm, adj_ents);
247  nb_ents_on_dim[2] = adj_ents.size();
248  }
249  break;
250  default:
251  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
252  "sorry, unknown space added to entity");
253  }
254  if (verb >= VERY_VERBOSE) {
255  std::ostringstream ss;
256  ss << "add entities to field " << name;
257  ss << " nb. add ents " << ents.size();
258  ss << " nb. add faces " << nb_ents_on_dim[2];
259  ss << " nb. add edges " << nb_ents_on_dim[1];
260  ss << " nb. add nodes " << nb_ents_on_dim[0];
261  ss << std::endl;
262  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
263  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
264  }
266 }
Tag th_FieldSpace
Definition: Core.hpp:204
field with continuous normal traction
Definition: definitions.h:172
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
const EntityHandle no_handle
No entity handle is indicated by zero handle, i.e. root meshset.
Definition: Common.hpp:27
const Tensor2_symmetric_Expr< const ddTensor0< T, Dim, i, j >, typename promote< T, double >::V, Dim, i, j > dd(const Tensor0< T * > &a, const Index< i, Dim > index1, const Index< j, Dim > index2, const Tensor1< int, Dim > &d_ijk, const Tensor1< double, Dim > &d_xyz)
Definition: ddTensor0.hpp:33
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
field with continuous tangents
Definition: definitions.h:171
FieldSpace
approximation spaces
Definition: definitions.h:167
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
EntityHandle get_field_meshset(const BitFieldId id) const
Definition: FieldCore.cpp:31
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
continuous field
Definition: definitions.h:170
field with C-1 continuity
Definition: definitions.h:173

◆ addPrismToDatabase()

MoFEMErrorCode MoFEM::Core::addPrismToDatabase ( const EntityHandle  prism,
int  verb = DEFAULT_VERBOSITY 
)

add prim element

FIXME: This is dirt solution, need to be fixed

Parameters
prismprim handle
verbverbosity level
Returns
error code

Definition at line 266 of file Core.cpp.

266  {
268  if (verb == -1)
269  verb = verbose;
270  std::pair<RefEntity_multiIndex::iterator, bool> p_ent;
271  p_ent = refinedEntities.insert(
272  boost::make_shared<RefEntity>(basicEntityDataPtr, prism));
273  if (p_ent.second) {
274  std::pair<RefElement_multiIndex::iterator, bool> p;
275  p = refinedFiniteElements.insert(
276  boost::shared_ptr<RefElement>(new RefElement_PRISM(*p_ent.first)));
277  int num_nodes;
278  const EntityHandle *conn;
279  CHKERR get_moab().get_connectivity(prism, conn, num_nodes, true);
280  Range face_side3, face_side4;
281  CHKERR get_moab().get_adjacencies(conn, 3, 2, false, face_side3);
282  CHKERR get_moab().get_adjacencies(&conn[3], 3, 2, false, face_side4);
283  if (face_side3.size() != 1)
284  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
285  "prism don't have side face 3");
286  if (face_side4.size() != 1)
287  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
288  "prims don't have side face 4");
289  p.first->get()->getSideNumberPtr(*face_side3.begin());
290  p.first->get()->getSideNumberPtr(*face_side4.begin());
291  }
293 }
RefEntity_multiIndex refinedEntities
refined entities
Definition: Core.hpp:244
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
RefElement_multiIndex refinedFiniteElements
refined elements
Definition: Core.hpp:245
#define CHKERR
Inline error check.
Definition: definitions.h:595
boost::shared_ptr< BasicEntityData > basicEntityDataPtr
Definition: Core.hpp:225
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ addProblem()

MoFEMErrorCode MoFEM::Core::addProblem ( const BitProblemId  id,
const std::string &  name,
int  verb = DEFAULT_VERBOSITY 
)
private

add problem

Parameters
idproblem id
nameproblem name
verbverbosity level
Returns
MoFEMErrorCode

Definition at line 30 of file ProblemsCore.cpp.

31  {
33  if (verb == -1)
34  verb = verbose;
35  EntityHandle meshset;
36  CHKERR get_moab().create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, meshset);
37  CHKERR get_moab().tag_set_data(th_ProblemId, &meshset, 1, &id);
38  void const *tag_data[] = {name.c_str()};
39  int tag_sizes[1];
40  tag_sizes[0] = name.size();
41  CHKERR get_moab().tag_set_by_ptr(th_ProblemName, &meshset, 1, tag_data,
42  tag_sizes);
43  // create entry
44  std::pair<Problem_multiIndex::iterator, bool> p =
45  pRoblems.insert(Problem(moab, meshset));
46  NOT_USED(p);
47  assert(p.second);
48  if (verb > 0) {
49  std::ostringstream ss;
50  ss << "add problem: " << name << std::endl;
51  PetscPrintf(cOmm, ss.str().c_str());
52  }
54 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
std::reference_wrapper< moab::Interface > moab
moab database
Definition: Core.hpp:265
Tag th_ProblemName
Definition: Core.hpp:208
Tag th_ProblemId
Definition: Core.hpp:208
Problem_multiIndex pRoblems
problems multi-index
Definition: Core.hpp:257
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
#define NOT_USED(x)
Definition: definitions.h:302

◆ build_adjacencies() [1/3]

MoFEMErrorCode MoFEM::Core::build_adjacencies ( const Range &  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

build adjacencies

Parameters
listof entities

This function will get information of adjacent finite elements and fields of all entities. If this is not executed, partitioning the problem is not possible. Adjacency map is based on degrees of freedom adjacent to elements. This linked to geometric element connectivity.

If new degrees of freedom or new finite elements are added to the database, adjacency map has to be rebuild.

Implements MoFEM::CoreInterface.

Definition at line 870 of file FECore.cpp.

870  {
872  if (verb == DEFAULT_VERBOSITY)
873  verb = verbose;
874  if (!((*buildMoFEM) & BUILD_FIELD))
875  SETERRQ(cOmm, MOFEM_NOT_FOUND, "field not build");
876  if (!((*buildMoFEM) & BUILD_FE))
877  SETERRQ(cOmm, MOFEM_NOT_FOUND, "fe not build");
878  for (Range::const_pair_iterator peit = ents.pair_begin();
879  peit != ents.pair_end(); ++peit) {
880  EntFiniteElement_multiIndex::index<Ent_mi_tag>::type::iterator fit, hi_fit;
881  fit = entsFiniteElements.get<Ent_mi_tag>().lower_bound(peit->first);
882  hi_fit = entsFiniteElements.get<Ent_mi_tag>().upper_bound(peit->second);
883  for (; fit != hi_fit; ++fit) {
884  if ((*fit)->getBitFieldIdRow().none() &&
885  (*fit)->getBitFieldIdCol().none() &&
886  (*fit)->getBitFieldIdData().none())
887  continue;
888  int by = BYROW;
889  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdCol())
890  by |= BYCOL;
891  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdData())
892  by |= BYDATA;
893  FieldEntityEntFiniteElementAdjacencyMap_change_ByWhat modify_row(by);
894  auto hint = entFEAdjacencies.end();
895  for (auto e : *(*fit)->row_field_ents_view) {
896  hint = entFEAdjacencies.emplace_hint(hint, e.lock(), *fit);
897  bool success = entFEAdjacencies.modify(hint, modify_row);
898  if (!success)
899  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
900  "modification unsuccessful");
901  }
902  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdCol()) {
903  int by = BYCOL;
904  if ((*fit)->getBitFieldIdCol() != (*fit)->getBitFieldIdData())
905  by |= BYDATA;
906  FieldEntityEntFiniteElementAdjacencyMap_change_ByWhat modify_col(by);
907  auto hint = entFEAdjacencies.end();
908  for (auto e : *(*fit)->col_field_ents_view) {
909  hint = entFEAdjacencies.emplace_hint(hint, e.lock(), *fit);
910  bool success = entFEAdjacencies.modify(hint, modify_col);
911  if (!success)
912  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
913  "modification unsuccessful");
914  }
915  }
916  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdData() ||
917  (*fit)->getBitFieldIdCol() != (*fit)->getBitFieldIdData()) {
918  FieldEntityEntFiniteElementAdjacencyMap_change_ByWhat modify_data(
919  BYDATA);
920  auto hint = entFEAdjacencies.end();
921  for (auto &e : *(*fit)->data_field_ents_view) {
922  hint = entFEAdjacencies.emplace_hint(hint, e, *fit);
923  bool success = entFEAdjacencies.modify(hint, modify_data);
924  if (!success)
925  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
926  "modification unsuccessful");
927  }
928  }
929  }
930  }
931  if (verb >= VERY_NOISY) {
933  }
934  if (verb >= VERBOSE) {
935  PetscSynchronizedPrintf(cOmm, "Nb. entFEAdjacencies %u\n",
936  entFEAdjacencies.size());
937  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
938  }
939  *buildMoFEM |= 1 << 2;
941 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:255
int verbose
Verbosity level.
Definition: Core.hpp:905
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252
MoFEMErrorCode list_adjacencies() const
list adjacencies
Definition: FieldCore.cpp:1103

◆ build_adjacencies() [2/3]

MoFEMErrorCode MoFEM::Core::build_adjacencies ( const BitRefLevel bit,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

build adjacencies

Parameters
bitadjacencies for refine level

This function will get information of adjacent finite elements and fields of all entities. If this is not executed, partitioning the problem is not possible. Adjacency map is based on degrees of freedom adjacent to elements. This linked to geometric element connectivity.

If new degrees of freedom or new finite elements are added to the database, adjacency map has to be rebuild.

Implements MoFEM::CoreInterface.

Definition at line 955 of file FECore.cpp.

955  {
957  if (verb == -1)
958  verb = verbose;
959  CHKERR build_adjacencies(bit, BitRefLevel().set(), verb);
960 
962 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode build_adjacencies(const Range &ents, int verb=DEFAULT_VERBOSITY)
build adjacencies
Definition: FECore.cpp:870
#define CHKERR
Inline error check.
Definition: definitions.h:595
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition: Types.hpp:51
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ build_adjacencies() [3/3]

MoFEMErrorCode MoFEM::Core::build_adjacencies ( const BitRefLevel bit,
const BitRefLevel mask,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

build adjacencies

Parameters
bitadjacencies for refine level
maskmask for bit level

This function will get information of adjacent finite elements and fields of all entities. If this is not executed, partitioning the problem is not possible. Adjacency map is based on degrees of freedom adjacent to elements. This linked to geometric element connectivity.

If new degrees of freedom or new finite elements are added to the database, adjacency map has to be rebuild.

Implements MoFEM::CoreInterface.

Definition at line 943 of file FECore.cpp.

944  {
946  if (verb == -1)
947  verb = verbose;
948  Range ents;
949  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents);
950 
951  CHKERR build_adjacencies(ents, verb);
952 
954 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode build_adjacencies(const Range &ents, int verb=DEFAULT_VERBOSITY)
build adjacencies
Definition: FECore.cpp:870
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ build_field()

MoFEMErrorCode MoFEM::Core::build_field ( const std::string  field_name,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

build field by name

Parameters
field_name
verbm
Returns
MoFEMErrorCode

Implements MoFEM::CoreInterface.

Definition at line 1048 of file FieldCore.cpp.

1048  {
1050  auto miit = fIelds.get<FieldName_mi_tag>().find(field_name);
1051  if (miit == fIelds.get<FieldName_mi_tag>().end()) {
1052  SETERRQ1(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "Field < %s > not found",
1053  field_name.c_str());
1054  }
1055  CHKERR buildField((*miit), verb);
1056  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
1058 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
MoFEMErrorCode buildField(const boost::shared_ptr< Field > &field, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:962
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ build_fields()

MoFEMErrorCode MoFEM::Core::build_fields ( int  verb = DEFAULT_VERBOSITY)
protectedvirtual

build fields

Implements MoFEM::CoreInterface.

Definition at line 1060 of file FieldCore.cpp.

1060  {
1062  if (verb == -1)
1063  verb = verbose;
1064  auto &set_id = fIelds.get<BitFieldId_mi_tag>();
1065  for (auto miit = set_id.begin(); miit != set_id.end(); miit++) {
1066  CHKERR buildField((*miit), verb);
1067  }
1068  *buildMoFEM = 1 << 0;
1069  if (verb > QUIET) {
1070  PetscSynchronizedPrintf(cOmm, "Nb. dofs %u\n", dofsField.size());
1071  }
1072  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
1074  // return 0;
1075 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
MoFEMErrorCode buildField(const boost::shared_ptr< Field > &field, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:962
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ build_finite_elements() [1/3]

MoFEMErrorCode MoFEM::Core::build_finite_elements ( int  verb = DEFAULT_VERBOSITY)
protectedvirtual

Build finite elementsBuild finite element data structures. Have to be run before problem and adjacencies are constructed.

Parameters
verbVerbosity level
Returns
Error code

Implements MoFEM::CoreInterface.

Definition at line 802 of file FECore.cpp.

802  {
804  if (verb == DEFAULT_VERBOSITY)
805  verb = verbose;
806 
807  // loop Finite Elements
808  for (auto &fe : finiteElements) {
809  if (verb >= VERBOSE)
810  PetscPrintf(cOmm, "Build Finite Elements %s\n", fe->getName().c_str());
811  CHKERR buildFiniteElements(fe, NULL, verb);
812  }
813 
814  if (verb >= VERBOSE) {
815  PetscSynchronizedPrintf(cOmm, "Nb. FEs %u\n", entsFiniteElements.size());
816  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
817  auto &finite_elements_by_id = entsFiniteElements.get<BitFEId_mi_tag>();
818  for (auto &fe : finiteElements) {
819  auto miit = finite_elements_by_id.lower_bound(fe->getId());
820  auto hi_miit = finite_elements_by_id.upper_bound(fe->getId());
821  int count = std::distance(miit, hi_miit);
822  std::ostringstream ss;
823  ss << *fe << " Nb. FEs " << count << std::endl;
824  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
825  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
826  }
827  }
828 
829  *buildMoFEM |= 1 << 1;
831 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
MoFEMErrorCode buildFiniteElements(const boost::shared_ptr< FiniteElement > &fe, const Range *ents_ptr=NULL, int verb=DEFAULT_VERBOSITY)
Definition: FECore.cpp:563
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252

◆ build_finite_elements() [2/3]

MoFEMErrorCode MoFEM::Core::build_finite_elements ( const BitRefLevel bit,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 833 of file FECore.cpp.

833  {
835  SETERRQ(cOmm, MOFEM_NOT_IMPLEMENTED, "Not yet implemented");
837 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507

◆ build_finite_elements() [3/3]

MoFEMErrorCode MoFEM::Core::build_finite_elements ( const string  fe_name,
const Range *const  ents_ptr = nullptr,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Build finite elementsBuild finite element data structures. Have to be run before problem and adjacencies are constructed.

Parameters
fe_nameName of finite element
ents_ptrPointer to range of finite elements
verbVerbosity level
Returns
Error code

Implements MoFEM::CoreInterface.

Definition at line 839 of file FECore.cpp.

841  {
843  if (verb == -1)
844  verb = verbose;
845 
846  auto fe_miit = finiteElements.get<FiniteElement_name_mi_tag>().find(fe_name);
847  if (fe_miit == finiteElements.get<FiniteElement_name_mi_tag>().end())
848  SETERRQ1(cOmm, MOFEM_NOT_FOUND, "Finite element <%s> not found",
849  fe_name.c_str());
850 
851  if (verb >= VERBOSE)
852  PetscPrintf(cOmm, "Build Finite Elements %s\n", fe_name.c_str());
853  CHKERR buildFiniteElements(*fe_miit, ents_ptr, verb);
854 
855  if (verb >= VERBOSE) {
856  auto &finite_elements_by_id = entsFiniteElements.get<BitFEId_mi_tag>();
857  auto miit = finite_elements_by_id.lower_bound((*fe_miit)->getId());
858  auto hi_miit = finite_elements_by_id.upper_bound((*fe_miit)->getId());
859  int count = std::distance(miit, hi_miit);
860  std::ostringstream ss;
861  ss << *(*fe_miit) << " Nb. FEs " << count << std::endl;
862  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
863  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
864  }
865 
866  *buildMoFEM |= 1 << 1;
868 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
MoFEMErrorCode buildFiniteElements(const boost::shared_ptr< FiniteElement > &fe, const Range *ents_ptr=NULL, int verb=DEFAULT_VERBOSITY)
Definition: FECore.cpp:563
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252

◆ build_problem_on_distributed_mesh()

MoFEMErrorCode MoFEM::Core::build_problem_on_distributed_mesh ( int  verb = DEFAULT_VERBOSITY)
protectedvirtual

build problem data structures, assuming that mesh is distributed (collective)

Deprecated:
Use ProblemsManager to build and partition problems

Mesh is distributed, that means that each processor keeps only own part of the mesh and shared entities.

Collective - need to be run on all processors in communicator, i.e. each function has to call this function.

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 229 of file ProblemsCore.cpp.

229  {
231  if (verb == -1)
232  verb = verbose;
233  Problem_multiIndex::iterator p_miit = pRoblems.begin();
234  for (; p_miit != pRoblems.end(); p_miit++) {
235  CHKERR getInterface<ProblemsManager>()->buildProblemOnDistributedMesh(
236  const_cast<Problem *>(&*p_miit), verb);
237  }
239 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
Problem_multiIndex pRoblems
problems multi-index
Definition: Core.hpp:257
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ build_problems()

MoFEMErrorCode MoFEM::Core::build_problems ( int  verb = DEFAULT_VERBOSITY)
protectedvirtual

build problem data structures

Deprecated:
Use MoFEM::Interface::build_problem(const std::string &name,const bool square_matrix,int verb = -1) instead. This function not allows to Control if problem is structurally symmetric.

Implements MoFEM::DeprecatedCoreInterface.

Definition at line 289 of file ProblemsCore.cpp.

289  {
291  if (verb == -1)
292  verb = verbose;
293  if (!((*buildMoFEM) & BUILD_FIELD))
294  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, "fields not build");
295  if (!((*buildMoFEM) & BUILD_FE))
296  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, "FEs not build");
297  if (!((*buildMoFEM) & BUILD_ADJ))
298  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, "adjacencies not build");
299  // iterate problems
300  Problem_multiIndex::iterator p_miit = pRoblems.begin();
301  for (; p_miit != pRoblems.end(); p_miit++) {
302  Problem *problem_ptr = const_cast<Problem *>(&*p_miit);
303  ierr = build_problem(problem_ptr, false, verb);
304  CHKERRG(ierr);
305  }
308 }
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define CHKERRG(n)
Check error code of MoFEM/MOAB/PETSc function.
Definition: definitions.h:543
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
int * buildMoFEM
keeps flags/semaphores for different stages
Definition: Core.hpp:916
DEPRECATED MoFEMErrorCode build_problem(const std::string &name, const bool square_matrix, int verb=-1)
build problem data structures
Problem_multiIndex pRoblems
problems multi-index
Definition: Core.hpp:257
int verbose
Verbosity level.
Definition: Core.hpp:905

◆ buildField()

MoFEMErrorCode MoFEM::Core::buildField ( const boost::shared_ptr< Field > &  field,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 962 of file FieldCore.cpp.

963  {
965  if (verb == -1)
966  verb = verbose;
967  if (verb > QUIET) {
968  PetscSynchronizedPrintf(cOmm, "Build Field %s (rank %d)\n",
969  field->getName().c_str(), rAnk);
970  }
971  std::map<EntityType, int> dof_counter;
972  std::map<EntityType, int> inactive_dof_counter;
973 
974  // Need to rebuild order table since number of dofs on each order when
975  // field was created.
976  if (field->getApproxBase() == USER_BASE)
977  CHKERR field->rebuildDofsOrderMap();
978 
979  switch (field->getSpace()) {
980  case NOFIELD:
981  CHKERR buildFieldForNoField(field->getId(), dof_counter, verb);
982  break;
983  case L2:
984  case H1:
985  case HCURL:
986  case HDIV:
987  CHKERR buildFieldForL2H1HcurlHdiv(field->getId(), dof_counter,
988  inactive_dof_counter, verb);
989  break;
990  default:
991  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED, "not implemented");
992  }
993 
994  if (verb > QUIET) {
995  int nb_added_dofs = 0;
996  int nb_inactive_added_dofs = 0;
997  for (auto const &it : dof_counter) {
998  switch (it.first) {
999  case MBVERTEX:
1000  PetscSynchronizedPrintf(cOmm,
1001  "nb added dofs (vertices) %d (inactive %d)\n",
1002  it.second, inactive_dof_counter[it.first]);
1003  break;
1004  case MBEDGE:
1005  PetscSynchronizedPrintf(cOmm,
1006  "nb added dofs (edges) %d (inactive %d)\n",
1007  it.second, inactive_dof_counter[it.first]);
1008  break;
1009  case MBTRI:
1010  PetscSynchronizedPrintf(cOmm,
1011  "nb added dofs (triangles) %d (inactive %d)\n",
1012  it.second, inactive_dof_counter[it.first]);
1013  break;
1014  case MBQUAD:
1015  PetscSynchronizedPrintf(cOmm,
1016  "nb added dofs (quads) %d (inactive %d)\n",
1017  it.second, inactive_dof_counter[it.first]);
1018  break;
1019  case MBTET:
1020  PetscSynchronizedPrintf(cOmm, "nb added dofs (tets) %d (inactive %d)\n",
1021  it.second, inactive_dof_counter[it.first]);
1022  break;
1023  case MBPRISM:
1024  PetscSynchronizedPrintf(cOmm,
1025  "nb added dofs (prisms) %d (inactive %d)\n",
1026  it.second, inactive_dof_counter[it.first]);
1027  break;
1028  case MBENTITYSET:
1029  PetscSynchronizedPrintf(cOmm,
1030  "nb added dofs (meshsets) %d (inactive %d)\n",
1031  it.second, inactive_dof_counter[it.first]);
1032  break;
1033  default:
1034  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED, "not implemented");
1035  }
1036  nb_added_dofs += it.second;
1037  nb_inactive_added_dofs += inactive_dof_counter[it.first];
1038  }
1039  if (verb > QUIET) {
1040  PetscSynchronizedPrintf(cOmm,
1041  "nb added dofs %d (number of inactive dofs %d)\n",
1042  nb_added_dofs, nb_inactive_added_dofs);
1043  }
1044  }
1046 }
field with continuous normal traction
Definition: definitions.h:172
user implemented approximation base
Definition: definitions.h:153
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
scalar or vector of scalars describe (no true field)
Definition: definitions.h:169
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
int rAnk
MOFEM communicator rank.
Definition: Core.hpp:846
field with continuous tangents
Definition: definitions.h:171
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode buildFieldForL2H1HcurlHdiv(const BitFieldId id, std::map< EntityType, int > &dof_counter, std::map< EntityType, int > &inactive_dof_counter, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:849
int verbose
Verbosity level.
Definition: Core.hpp:905
MoFEMErrorCode buildFieldForNoField(const BitFieldId id, std::map< EntityType, int > &dof_counter, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:739
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
continuous field
Definition: definitions.h:170
field with C-1 continuity
Definition: definitions.h:173

◆ buildFieldForL2H1HcurlHdiv()

MoFEMErrorCode MoFEM::Core::buildFieldForL2H1HcurlHdiv ( const BitFieldId  id,
std::map< EntityType, int > &  dof_counter,
std::map< EntityType, int > &  inactive_dof_counter,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 849 of file FieldCore.cpp.

851  {
853  if (verb == -1)
854  verb = verbose;
855 
856  // Find field
857  auto &set_id = fIelds.get<BitFieldId_mi_tag>();
858  auto field_it = set_id.find(id);
859  if (field_it == set_id.end()) {
860  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "Field not found");
861  }
862  const int rank = field_it->get()->getNbOfCoeffs();
863  const boost::string_ref &field_name = field_it->get()->getNameRef();
864 
865  // Ents in the field meshset
866  Range ents_of_id_meshset;
867  CHKERR get_moab().get_entities_by_handle((*field_it)->meshSet,
868  ents_of_id_meshset, false);
869  if (verb > VERY_NOISY) {
870  PetscSynchronizedPrintf(PETSC_COMM_SELF, "Ents in field %s meshset %d\n",
871  (*field_it)->getName().c_str(),
872  ents_of_id_meshset.size());
873  }
874 
875  for (auto p_eit = ents_of_id_meshset.pair_begin();
876  p_eit != ents_of_id_meshset.pair_end(); ++p_eit) {
877 
878  const EntityHandle first = p_eit->first;
879  const EntityHandle second = p_eit->second;
880 
881  auto feit = entsFields.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
882  boost::make_tuple(field_name, first));
883  if (feit == entsFields.get<Composite_Name_And_Ent_mi_tag>().end())
884  continue;
885  auto hi_feit = entsFields.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
886  boost::make_tuple(field_name, second));
887 
888  // If there are DOFs in that range is more pragmatic to remove them
889  // rather than to find sub-ranges or make them inactive
890  auto dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
891  boost::make_tuple(field_name, first));
892  auto hi_dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
893  boost::make_tuple(field_name, second));
894  dofsField.get<Composite_Name_And_Ent_mi_tag>().erase(dit, hi_dit);
895 
896  // Add vertices DOFs by bulk
897  boost::shared_ptr<std::vector<DofEntity>> dofs_array =
898  boost::make_shared<std::vector<DofEntity>>(std::vector<DofEntity>());
899  // Add Sequence of DOFs to sequence container as weak_ptr
900  int nb_dofs_on_ents = 0;
901  for (auto tmp_feit = feit; tmp_feit != hi_feit; ++tmp_feit) {
902  nb_dofs_on_ents += rank * tmp_feit->get()->getOrderNbDofs(
903  tmp_feit->get()->getMaxOrder());
904  }
905 
906  // Reserve memory
907  dofs_array->reserve(nb_dofs_on_ents);
908 
909  // Create DOFs
910  for (; feit != hi_feit; ++feit) {
911  // Create dofs instances and shared pointers
912  int DD = 0;
913  // Loop orders (loop until max entity order is set)
914  for (int oo = 0; oo <= feit->get()->getMaxOrder(); ++oo) {
915  // Loop nb. dofs at order oo
916  for (int dd = 0; dd < feit->get()->getOrderNbDofsDiff(oo); ++dd) {
917  // Loop rank
918  for (int rr = 0; rr < rank; ++rr, ++DD) {
919  dofs_array->emplace_back(*feit, oo, rr, DD, true);
920  ++dof_counter[feit->get()->getEntType()];
921  }
922  }
923  }
924  if (DD > feit->get()->getNbDofsOnEnt()) {
925  std::ostringstream ss;
926  ss << "rank " << rAnk << " ";
927  ss << **feit << std::endl;
928  SETERRQ3(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
929  "Expected number of DOFs on entity not equal to number added "
930  "to database (DD = %d != %d = "
931  "feit->get()->getNbDofsOnEnt())\n"
932  "%s",
933  DD, feit->get()->getNbDofsOnEnt(), ss.str().c_str());
934  }
935  }
936 
937  // Insert into Multi-Index container
938  int dofs_field_size0 = dofsField.size();
939  auto hint = dofsField.end();
940  for (auto &v : *dofs_array)
941  hint = dofsField.emplace_hint(hint, dofs_array, &v);
942 
943  // Add Sequence of DOFs to sequence container as weak_ptr
944  field_it->get()->getDofSequenceContainer().push_back(dofs_array);
945 
946  // Check data consistency
947  if (PetscUnlikely(static_cast<int>(dofs_array.use_count()) !=
948  static_cast<int>(dofs_array->size() + 1))) {
949  SETERRQ2(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
950  "Wrong use count %d != %d", dofs_array.use_count(),
951  dofs_array->size() + 1);
952  }
953  if (dofs_field_size0 + dofs_array->size() != dofsField.size()) {
954  SETERRQ2(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
955  "Wrong number of inserted DOFs %d != %d", dofs_array->size(),
956  dofsField.size() - dofs_field_size0);
957  }
958  }
960 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
int rAnk
MOFEM communicator rank.
Definition: Core.hpp:846
const Tensor2_symmetric_Expr< const ddTensor0< T, Dim, i, j >, typename promote< T, double >::V, Dim, i, j > dd(const Tensor0< T * > &a, const Index< i, Dim > index1, const Index< j, Dim > index2, const Tensor1< int, Dim > &d_ijk, const Tensor1< double, Dim > &d_xyz)
Definition: ddTensor0.hpp:33
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ buildFieldForNoField()

MoFEMErrorCode MoFEM::Core::buildFieldForNoField ( const BitFieldId  id,
std::map< EntityType, int > &  dof_counter,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 739 of file FieldCore.cpp.

740  {
742  if (verb == -1)
743  verb = verbose;
744  // field it
745  auto &set_id = fIelds.get<BitFieldId_mi_tag>();
746  // find fields
747  auto miit = set_id.find(id);
748  if (miit == set_id.end())
749  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "field not found");
750 
751  // ents in the field meshset
752  Range ents_of_id_meshset;
753  CHKERR get_moab().get_entities_by_handle((*miit)->meshSet, ents_of_id_meshset,
754  false);
755  if (verb > VERY_NOISY)
756  PetscSynchronizedPrintf(cOmm, "ents in field %s meshset %d\n",
757  (*miit)->getName().c_str(),
758  ents_of_id_meshset.size());
759 
760  // ent view by field id (in set all MoabEnts has the same FieldId)
761  auto eiit =
762  entsFields.get<FieldName_mi_tag>().lower_bound(miit->get()->getNameRef());
763  FieldEntity_multiIndex_ent_view ents_id_view;
764  if (eiit != entsFields.get<FieldName_mi_tag>().end()) {
765  auto hi_eiit = entsFields.get<FieldName_mi_tag>().upper_bound(
766  miit->get()->getNameRef());
767  std::copy(eiit, hi_eiit, std::back_inserter(ents_id_view));
768  }
769 
770  boost::shared_ptr<const int> zero_order(new const int(0));
771 
772  for (Range::iterator eit = ents_of_id_meshset.begin();
773  eit != ents_of_id_meshset.end(); eit++) {
774  // search if field meshset is in database
775  RefEntity_multiIndex::index<Ent_mi_tag>::type::iterator miit_ref_ent;
776  miit_ref_ent = refinedEntities.get<Ent_mi_tag>().find(*eit);
777  if (miit_ref_ent == refinedEntities.get<Ent_mi_tag>().end()) {
778  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
779  "Entity is not in MoFEM database, entities in field meshset need "
780  "to be seeded (i.e. bit ref level add to them)");
781  }
782 
783  auto add_dofs = [&](auto field_eit) {
785  // create dofs on this entity (nb. of dofs is equal to rank)
786  for (FieldCoefficientsNumber rank = 0; rank < (*miit)->getNbOfCoeffs();
787  rank++) {
788  std::pair<DofEntity_multiIndex::iterator, bool> d_miit;
789  // insert dof
790  d_miit = dofsField.insert(
791  boost::make_shared<DofEntity>(field_eit, 0, rank, rank, true));
792  if (d_miit.second) {
793  dof_counter[MBENTITYSET]++; // Count entities in the meshset
794  } else {
795  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
796  "Dof should be created");
797  }
798  }
800  };
801 
802  // create database entity
803  auto field_eit = ents_id_view.get<1>().find(*eit);
804  if (field_eit == ents_id_view.get<1>().end()) {
805 
806  std::pair<FieldEntity_multiIndex::iterator, bool> e_miit;
807  e_miit = entsFields.insert(boost::make_shared<FieldEntity>(
808  *miit, *miit_ref_ent,
809  FieldEntity::makeSharedFieldDataAdaptorPtr(*miit, *miit_ref_ent),
810  boost::shared_ptr<const int>(zero_order, zero_order.get())));
811 
812  if (!e_miit.second)
813  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
814  "Entity should be created");
815 
816  CHKERR add_dofs(*(e_miit.first));
817 
818 
819  } else {
820 
821  // If there are DOFs in that range is more pragmatic to remove them
822  // rather than to find sub-ranges or make them inactive
823  auto dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
824  boost::make_tuple((*miit)->getNameRef(), *eit));
825  auto hi_dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
826  boost::make_tuple((*miit)->getNameRef(), *eit));
827  dofsField.get<Composite_Name_And_Ent_mi_tag>().erase(dit, hi_dit);
828 
829  CHKERR add_dofs(*field_eit);
830  }
831  }
832 
833  if (verb > VERY_VERBOSE) {
834  auto lo_dof = dofsField.get<FieldName_mi_tag>().lower_bound(
835  miit->get()->getNameRef());
836  auto hi_dof = dofsField.get<FieldName_mi_tag>().upper_bound(
837  miit->get()->getNameRef());
838  for (; lo_dof != hi_dof; lo_dof++) {
839  std::ostringstream ss;
840  ss << *lo_dof << std::endl;
841  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
842  }
843  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
844  }
845 
847 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
RefEntity_multiIndex refinedEntities
refined entities
Definition: Core.hpp:244
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
moab::Interface & get_moab()
Definition: Core.hpp:266
static boost::shared_ptr< FieldData *const > makeSharedFieldDataAdaptorPtr(const boost::shared_ptr< Field > &field_ptr, const boost::shared_ptr< RefEntity > &ref_ent_ptr)
Return shared pointer to entity field data vector adaptor.
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
multi_index_container< boost::shared_ptr< FieldEntity >, indexed_by< sequenced<>, ordered_non_unique< tag< Ent_mi_tag >, const_mem_fun< FieldEntity, EntityHandle, &FieldEntity::getEnt > > > > FieldEntity_multiIndex_ent_view
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
int FieldCoefficientsNumber
Number of field coefficients.
Definition: Types.hpp:38
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ buildFiniteElements()

MoFEMErrorCode MoFEM::Core::buildFiniteElements ( const boost::shared_ptr< FiniteElement > &  fe,
const Range *  ents_ptr = NULL,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 563 of file FECore.cpp.

564  {
566  if (verb == DEFAULT_VERBOSITY)
567  verb = verbose;
568 
569  auto &fields_by_id = fIelds.get<BitFieldId_mi_tag>();
570 
571  // Get id of mofem fields for row, col and data
572  enum IntLoop { ROW = 0, COL, DATA, LAST };
573  std::array<BitFieldId, LAST> fe_fields = {fe.get()->getBitFieldIdRow(),
574  fe.get()->getBitFieldIdCol(),
575  fe.get()->getBitFieldIdData()};
576 
577  // Get finite element meshset
578  EntityHandle meshset = get_finite_element_meshset(fe.get()->getId());
579 
580  // Get entities from finite element meshset // if meshset
581  Range fe_ents;
582  CHKERR get_moab().get_entities_by_handle(meshset, fe_ents, false);
583 
584  if (ents_ptr)
585  fe_ents = intersect(fe_ents, *ents_ptr);
586 
587  // Map entity uid to pointers
588  typedef std::vector<boost::weak_ptr<EntFiniteElement>> VecOfWeakFEPtrs;
589  typedef std::map<const UId *, VecOfWeakFEPtrs> MapEntUIdAndVecOfWeakFEPtrs;
590  MapEntUIdAndVecOfWeakFEPtrs ent_uid_and_fe_vec;
591  std::map<EntityHandle, boost::shared_ptr<std::vector<FEDofEntity>>>
592  data_dofs_array;
593  VecOfWeakFEPtrs processed_fes;
594  processed_fes.reserve(fe_ents.size());
595 
596  int last_row_field_ents_view_size = 0;
597  int last_col_field_ents_view_size = 0;
598 
599  // View of field entities on element
600  FieldEntity_vector_view data_field_ents_view;
601 
602  // Loop meshset finite element ents and add finite elements
603  for (Range::const_pair_iterator peit = fe_ents.const_pair_begin();
604  peit != fe_ents.const_pair_end(); peit++) {
605 
606  EntityHandle first = peit->first;
607  EntityHandle second = peit->second;
608 
609  // Find range of ref entities that is sequence
610  // note: iterator is a wrapper
611  // check if is in refinedFiniteElements database
612  auto ref_fe_miit =
613  refinedFiniteElements.get<Ent_mi_tag>().lower_bound(first);
614  if (ref_fe_miit == refinedFiniteElements.get<Ent_mi_tag>().end()) {
615  std::ostringstream ss;
616  ss << "refinedFiniteElements not in database ent = " << first;
617  ss << " type " << get_moab().type_from_handle(first);
618  ss << " " << *fe;
619  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, ss.str().c_str());
620  }
621  auto hi_ref_fe_miit =
622  refinedFiniteElements.get<Ent_mi_tag>().upper_bound(second);
623 
624  EntFiniteElement_multiIndex::iterator hint_p = entsFiniteElements.end();
625  for (; ref_fe_miit != hi_ref_fe_miit; ref_fe_miit++) {
626 
627  // Add finite element to database
628  hint_p = entsFiniteElements.emplace_hint(
629  hint_p, boost::make_shared<EntFiniteElement>(*ref_fe_miit, fe));
630  processed_fes.emplace_back(*hint_p);
631  auto fe_raw_ptr = hint_p->get();
632 
633  // Allocate space for etities view
634  data_field_ents_view.clear();
635  fe_raw_ptr->row_field_ents_view->reserve(last_row_field_ents_view_size);
636  // Create shared pointer for entities view
637  if (fe_fields[ROW] == fe_fields[COL]) {
638  fe_raw_ptr->col_field_ents_view = fe_raw_ptr->row_field_ents_view;
639  } else {
640  // row and columns are diffent
641  if (fe_raw_ptr->col_field_ents_view ==
642  fe_raw_ptr->row_field_ents_view)
643  fe_raw_ptr->col_field_ents_view =
644  boost::make_shared<FieldEntity_vector_view>();
645  fe_raw_ptr->col_field_ents_view->reserve(last_col_field_ents_view_size);
646  }
647 
648  int nb_dofs_on_data = 0;
649 
650  // Iterate over all field and check which one is on the element
651  for (unsigned int ii = 0; ii != BitFieldId().size(); ++ii) {
652 
653  // Common field id for ROW, COL and DATA
654  BitFieldId id_common = 0;
655  // Check if the field (ii) is added to finite element
656  for (int ss = 0; ss < LAST; ss++) {
657  id_common |= fe_fields[ss] & BitFieldId().set(ii);
658  }
659  if (id_common.none())
660  continue;
661 
662  // Find in database data associated with the field (ii)
663  const BitFieldId field_id = BitFieldId().set(ii);
664  auto miit = fields_by_id.find(field_id);
665  if (miit == fields_by_id.end()) {
666  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
667  "Data inconsistency");
668  }
669 
670 
671  // Loop over adjacencies of element and find field entities on those
672  // adjacencies, that create hash map map_uid_fe which is used later
673  const std::string field_name = miit->get()->getName();
674  const bool add_to_data = (field_id & fe_fields[DATA]).any();
675  const bool add_to_row = (field_id & fe_fields[ROW]).any();
676  const bool add_to_col = (field_id & fe_fields[COL]).any();
677 
678  // Entities adjacent to entities
679  Range adj_ents;
680 
681  // Resolve entities on element, those entities are used to build tag
682  // with dof uids on finite element tag
683  CHKERR fe_raw_ptr->getElementAdjacency(*miit, adj_ents);
684 
685  for (Range::pair_iterator p_eit = adj_ents.pair_begin();
686  p_eit != adj_ents.pair_end(); ++p_eit) {
687 
688  const EntityHandle first = p_eit->first;
689  const EntityHandle second = p_eit->second;
690 
691  typedef FieldEntity_multiIndex::index<
692  Composite_Name_And_Ent_mi_tag>::type FieldEntityByComposite;
693  auto &field_ents_by_name_and_ent =
694  entsFields.get<Composite_Name_And_Ent_mi_tag>();
695  FieldEntityByComposite::iterator meit;
696 
697  // If one entity in the pair search for one, otherwise search for
698  // range
699  if (first == second)
700  meit = field_ents_by_name_and_ent.find(
701  boost::make_tuple(field_name, first));
702  else
703  meit = field_ents_by_name_and_ent.lower_bound(
704  boost::make_tuple(field_name, first));
705 
706  if (meit != field_ents_by_name_and_ent.end()) {
707 
708  decltype(meit) hi_meit;
709 
710  if (first == second) {
711  hi_meit = meit;
712  ++hi_meit;
713  } else
714  hi_meit = field_ents_by_name_and_ent.upper_bound(
715  boost::make_tuple(field_name, second));
716 
717  // Add to view and create list of finite elements with this dof UId
718  for (; meit != hi_meit; ++meit) {
719  // Add entity to map with key entity uids pointers and data
720  // finite elements weak ptrs. I using pointers to uids instead
721  // uids because this is faster.
722  const UId *uid_ptr = &(meit->get()->getGlobalUniqueId());
723  auto &fe_vec = ent_uid_and_fe_vec[uid_ptr];
724  // get number of dofs on entities to pre-allocate memory for
725  // element
726  const int nb_dofs_on_ent = meit->get()->getNbDofsOnEnt();
727  if (add_to_data) {
728  nb_dofs_on_data += nb_dofs_on_ent;
729  data_field_ents_view.emplace_back(*meit);
730  }
731  if (add_to_row) {
732  fe_raw_ptr->row_field_ents_view->emplace_back(*meit);
733  }
734  if (add_to_col) {
735  if (fe_raw_ptr->col_field_ents_view !=
736  fe_raw_ptr->row_field_ents_view)
737  fe_raw_ptr->col_field_ents_view->emplace_back(*meit);
738  }
739  // add finite element to processed list
740  fe_vec.emplace_back(*hint_p);
741  }
742  }
743  }
744  }
745 
746  // Sort field ents by uid
747  auto uid_comp = [](const auto &a, const auto &b) {
748  return a.lock()->getGlobalUniqueId() < b.lock()->getGlobalUniqueId();
749  };
750 
751  // Sort all views
752 
753  // Data
754  sort(data_field_ents_view.begin(), data_field_ents_view.end(), uid_comp);
755  for (auto e : data_field_ents_view)
756  fe_raw_ptr->data_field_ents_view->emplace_back(e);
757 
758  // Row
759  sort(fe_raw_ptr->row_field_ents_view->begin(),
760  fe_raw_ptr->row_field_ents_view->end(), uid_comp);
761  last_row_field_ents_view_size = fe_raw_ptr->row_field_ents_view->size();
762 
763  // Column
764  if (fe_raw_ptr->col_field_ents_view != fe_raw_ptr->row_field_ents_view) {
765  sort(fe_raw_ptr->col_field_ents_view->begin(),
766  fe_raw_ptr->col_field_ents_view->end(), uid_comp);
767  last_col_field_ents_view_size = fe_raw_ptr->col_field_ents_view->size();
768  }
769 
770  // Clear finite element data structures
771  fe_raw_ptr->data_dofs->clear();
772 
773  // Reserve memory for data FE Dofs
774  auto data_dofs_array_vec = boost::make_shared<std::vector<FEDofEntity>>();
775  data_dofs_array[fe_raw_ptr->getEnt()] = data_dofs_array_vec;
776  data_dofs_array_vec->reserve(nb_dofs_on_data);
777 
778  fe_raw_ptr->getDofsSequence() = data_dofs_array_vec;
779 
780 
781  }
782  }
783 
784  auto &dofs_by_ent_uid = dofsField.get<Unique_Ent_mi_tag>();
785 
786  // Loop over hash map, which has all entities on given elemnts
787  boost::shared_ptr<SideNumber> side_number_ptr;
788  for (auto &mit : ent_uid_and_fe_vec) {
789  auto range_dit = dofs_by_ent_uid.equal_range(*mit.first);
790  if (range_dit.first != range_dit.second) {
791  const BitFieldId field_id = range_dit.first->get()->getId();
792  if ((field_id & fe_fields[DATA]).any())
793  BuildFiniteElements<DATA>::addToData(range_dit, mit.second);
794  }
795  }
796 
798 
800 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
EntityHandle get_finite_element_meshset(const BitFEId id) const
Definition: FECore.cpp:262
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
moab::Interface & get_moab()
Definition: Core.hpp:266
std::vector< boost::weak_ptr< FieldEntity > > FieldEntity_vector_view
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
static void emplaceHint(T &fe_vec)
Definition: FECore.cpp:543
RefElement_multiIndex refinedFiniteElements
refined elements
Definition: Core.hpp:245
std::bitset< BITFIELDID_SIZE > BitFieldId
Field Id.
Definition: Types.hpp:53
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
static void addToData(T1 &range_dit, T2 &fe_vec)
Definition: FECore.cpp:524
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252
uint128_t UId
Unique Id.
Definition: Types.hpp:41

◆ check_field()

bool MoFEM::Core::check_field ( const std::string &  name) const
protectedvirtual

check if field is in database

Parameters
namefield name
Returns
true if field exist

Implements MoFEM::CoreInterface.

Definition at line 43 of file FieldCore.cpp.

43  {
44  auto &set = fIelds.get<FieldName_mi_tag>();
45  auto miit = set.find(name);
46  if (miit == set.end())
47  return false;
48  return true;
49 }
Field_multiIndex fIelds
fields
Definition: Core.hpp:247

◆ check_finite_element()

bool MoFEM::Core::check_finite_element ( const std::string &  name) const
protectedvirtual

Check if finite element is in database.

Parameters
nameName of finite element
Returns
true if element is declared

Implements MoFEM::CoreInterface.

Definition at line 35 of file FECore.cpp.

35  {
36  typedef FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type
37  FeSetByName;
38  const FeSetByName &set = finiteElements.get<FiniteElement_name_mi_tag>();
39  FeSetByName::iterator miit = set.find(name);
40  if (miit == set.end())
41  return false;
42  return true;
43 }
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251

◆ check_number_of_ents_in_ents_field() [1/2]

MoFEMErrorCode MoFEM::Core::check_number_of_ents_in_ents_field ( const std::string &  name) const
protectedvirtual

check data consistency in entitiesPtr

Implements MoFEM::CoreInterface.

Definition at line 1178 of file FieldCore.cpp.

1178  {
1180  auto it = fIelds.get<FieldName_mi_tag>().find(name);
1181  if (it == fIelds.get<FieldName_mi_tag>().end()) {
1182  SETERRQ1(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
1183  "field not found < %s >", name.c_str());
1184  }
1185  EntityHandle meshset = (*it)->getMeshset();
1186  int num_entities;
1187  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
1188  if (entsFields.get<FieldName_mi_tag>().count((*it)->getName()) >
1189  (unsigned int)num_entities) {
1190  SETERRQ1(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
1191  "not equal number of entities in meshset and field multiindex "
1192  "< %s >",
1193  name.c_str());
1194  }
1196 }
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247

◆ check_number_of_ents_in_ents_field() [2/2]

MoFEMErrorCode MoFEM::Core::check_number_of_ents_in_ents_field ( ) const
protectedvirtual

check data consistency in entitiesPtr

Implements MoFEM::CoreInterface.

Definition at line 1197 of file FieldCore.cpp.

1197  {
1199  for (auto &it : fIelds.get<FieldName_mi_tag>()) {
1200  if (it->getSpace() == NOFIELD)
1201  continue; // FIXME: should be treated properly, not test is just
1202  // skipped for this NOFIELD space
1203  EntityHandle meshset = it->getMeshset();
1204  int num_entities;
1205  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
1206  if (entsFields.get<FieldName_mi_tag>().count(it->getName()) >
1207  (unsigned int)num_entities) {
1208  SETERRQ1(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
1209  "not equal number of entities in meshset and field "
1210  "multiindex < %s >",
1211  it->getName().c_str());
1212  }
1213  }
1215 }
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
moab::Interface & get_moab()
Definition: Core.hpp:266
scalar or vector of scalars describe (no true field)
Definition: definitions.h:169
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
Field_multiIndex fIelds
fields
Definition: Core.hpp:247
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ check_number_of_ents_in_ents_finite_element() [1/2]

MoFEMErrorCode MoFEM::Core::check_number_of_ents_in_ents_finite_element ( const std::string &  name) const
protectedvirtual

check data consistency in entsFiniteElements

Implements MoFEM::CoreInterface.

Definition at line 975 of file FECore.cpp.

976  {
978  FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type::iterator it;
979  it = finiteElements.get<FiniteElement_name_mi_tag>().find(name);
980  if (it == finiteElements.get<FiniteElement_name_mi_tag>().end()) {
981  SETERRQ1(cOmm, 1, "finite element not found < %s >", name.c_str());
982  }
983  EntityHandle meshset = (*it)->getMeshset();
984 
985  int num_entities;
986  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
987 
988  if (entsFiniteElements.get<FiniteElement_name_mi_tag>().count(
989  (*it)->getName().c_str()) != (unsigned int)num_entities) {
990  SETERRQ1(cOmm, 1,
991  "not equal number of entities in meshset and finite elements "
992  "multiindex < %s >",
993  (*it)->getName().c_str());
994  }
996 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252

◆ check_number_of_ents_in_ents_finite_element() [2/2]

MoFEMErrorCode MoFEM::Core::check_number_of_ents_in_ents_finite_element ( ) const
protectedvirtual

check data consistency in entsFiniteElements

Implements MoFEM::CoreInterface.

Definition at line 998 of file FECore.cpp.

998  {
1000  FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type::iterator it;
1001  it = finiteElements.get<FiniteElement_name_mi_tag>().begin();
1002  for (; it != finiteElements.get<FiniteElement_name_mi_tag>().end(); it++) {
1003  EntityHandle meshset = (*it)->getMeshset();
1004 
1005  int num_entities;
1006  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
1007 
1008  if (entsFiniteElements.get<FiniteElement_name_mi_tag>().count(
1009  (*it)->getName().c_str()) != (unsigned int)num_entities) {
1010  SETERRQ1(cOmm, 1,
1011  "not equal number of entities in meshset and finite elements "
1012  "multiindex < %s >",
1013  (*it)->getName().c_str());
1014  }
1015  }
1017 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:842
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251
#define CHKERR
Inline error check.
Definition: definitions.h:595
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252

◆ check_problem()

bool MoFEM::Core::check_problem ( const std::string  name)
protectedvirtual

check if problem exist

Parameters
nameproblem name
Returns
true if problem is in database

Implements MoFEM::CoreInterface.

Definition at line 21 of file ProblemsCore.cpp.

21  {
22  Problem_multiIndex::index<Problem_mi_tag>::type::iterator pit;
23  pit = pRoblems.get<Problem_mi_tag>().find(name);
24  if (pit == pRoblems.get<Problem_mi_tag>().end()) {
25  return false;
26  }
27  return true;
28 }
Problem_multiIndex pRoblems
problems multi-index
Definition: Core.hpp:257

◆ clear_adjacencies_entities() [1/3]

MoFEMErrorCode MoFEM::Core::clear_adjacencies_entities ( const BitRefLevel  bit,
const BitRefLevel  mask,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear adjacency map for entities on given bit level

Parameters
bit
mask

Implements MoFEM::CoreInterface.

Definition at line 205 of file DeleteCore.cpp.

207  {
209  if (verb == -1)
210  verb = verbose;
211  Range ents;
212  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents, verb);
215 }
MoFEMErrorCode clear_adjacencies_entities(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for entities on given bit level
Definition: DeleteCore.cpp:205
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_adjacencies_entities() [2/3]

MoFEMErrorCode MoFEM::Core::clear_adjacencies_entities ( const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear adjacencies for field entities by entities

Implements MoFEM::CoreInterface.

Definition at line 217 of file DeleteCore.cpp.

217  {
219  if (verb == -1)
220  verb = verbose;
221  for (Range::const_pair_iterator p_eit = ents.pair_begin();
222  p_eit != ents.pair_end(); ++p_eit) {
223  const EntityHandle first = p_eit->first;
224  const EntityHandle second = p_eit->second;
225  FieldEntityEntFiniteElementAdjacencyMap_multiIndex::index<
226  Ent_mi_tag>::type::iterator ait,
227  hi_ait;
228  ait = entFEAdjacencies.get<Ent_mi_tag>().lower_bound(first);
229  hi_ait = entFEAdjacencies.get<Ent_mi_tag>().upper_bound(second);
230  entFEAdjacencies.get<Ent_mi_tag>().erase(ait, hi_ait);
231  }
233 }
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:255
int verbose
Verbosity level.
Definition: Core.hpp:905

◆ clear_adjacencies_entities() [3/3]

MoFEMErrorCode MoFEM::Core::clear_adjacencies_entities ( const std::string  name,
const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear adjacencies for field entities by entities and field namd

Implements MoFEM::CoreInterface.

Definition at line 235 of file DeleteCore.cpp.

236  {
238  if (verb == -1)
239  verb = verbose;
240 
241  const Field *field_ptr = get_field_structure(name);
242  int field_bit_number = field_ptr->getBitNumber();
243  bool is_distributed_mesh = basicEntityDataPtr->trueIfDistributedMesh();
244  ParallelComm *pcomm =
245  ParallelComm::get_pcomm(&get_moab(), basicEntityDataPtr->pcommID);
246 
247  for (Range::const_pair_iterator p_eit = ents.pair_begin();
248  p_eit != ents.pair_end(); p_eit++) {
249 
250  // First and last handle
251  const EntityHandle first = p_eit->first;
252  const EntityHandle second = p_eit->second;
253 
254  // Get owner proc and owner handle
255  int f_owner_proc;
256  EntityHandle f_moab_owner_handle;
257  CHKERR pcomm->get_owner_handle(first, f_owner_proc, f_moab_owner_handle);
258  int s_owner_proc;
259  EntityHandle s_moab_owner_handle;
260  CHKERR pcomm->get_owner_handle(second, s_owner_proc, s_moab_owner_handle);
261 
262  // Get UId
264  f_owner_proc, field_bit_number, f_moab_owner_handle,
265  is_distributed_mesh);
267  s_owner_proc, field_bit_number, s_moab_owner_handle,
268  is_distributed_mesh);
269 
270  // Find adjacencies
271  FieldEntityEntFiniteElementAdjacencyMap_multiIndex::index<
272  Unique_mi_tag>::type::iterator ait,
273  hi_ait;
274  ait = entFEAdjacencies.get<Unique_mi_tag>().lower_bound(first_uid);
275  hi_ait = entFEAdjacencies.get<Unique_mi_tag>().upper_bound(second_uid);
276  entFEAdjacencies.get<Unique_mi_tag>().erase(ait, hi_ait);
277  }
279 }
moab::Interface & get_moab()
Definition: Core.hpp:266
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
UId getGlobalUniqueIdCalculate() const
Calculate global UId.
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
const Field * get_field_structure(const std::string &name)
get field structure
Definition: FieldCore.cpp:51
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:255
#define CHKERR
Inline error check.
Definition: definitions.h:595
boost::shared_ptr< BasicEntityData > basicEntityDataPtr
Definition: Core.hpp:225
int verbose
Verbosity level.
Definition: Core.hpp:905
uint128_t UId
Unique Id.
Definition: Types.hpp:41

◆ clear_adjacencies_finite_elements() [1/3]

MoFEMErrorCode MoFEM::Core::clear_adjacencies_finite_elements ( const BitRefLevel  bit,
const BitRefLevel  mask,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear adjacency map for finite elements on given bit level

Parameters
bit
mask

Implements MoFEM::CoreInterface.

Definition at line 334 of file DeleteCore.cpp.

336  {
338  Range ents;
339  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents, verb);
342 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode clear_adjacencies_finite_elements(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for finite elements on given bit level
Definition: DeleteCore.cpp:334
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_adjacencies_finite_elements() [2/3]

MoFEMErrorCode MoFEM::Core::clear_adjacencies_finite_elements ( const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 344 of file DeleteCore.cpp.

345  {
347  if (verb == -1)
348  verb = verbose;
349  for (Range::const_pair_iterator p_eit = ents.pair_begin();
350  p_eit != ents.pair_end(); p_eit++) {
351  EntityHandle first = p_eit->first;
352  EntityHandle second = p_eit->second;
353  FieldEntityEntFiniteElementAdjacencyMap_multiIndex::index<
354  FEEnt_mi_tag>::type::iterator ait,
355  hi_ait;
356  ait = entFEAdjacencies.get<FEEnt_mi_tag>().lower_bound(first);
357  hi_ait = entFEAdjacencies.get<FEEnt_mi_tag>().upper_bound(second);
358  entFEAdjacencies.get<FEEnt_mi_tag>().erase(ait, hi_ait);
359  }
361 }
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:255
int verbose
Verbosity level.
Definition: Core.hpp:905

◆ clear_adjacencies_finite_elements() [3/3]

MoFEMErrorCode MoFEM::Core::clear_adjacencies_finite_elements ( const std::string  name,
const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protected

Definition at line 363 of file DeleteCore.cpp.

365  {
367  if (verb == -1)
368  verb = verbose;
369 
370  FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type::iterator
371  it_fe = finiteElements.get<FiniteElement_name_mi_tag>().find(name);
372  if (it_fe != finiteElements.get<FiniteElement_name_mi_tag>().end()) {
373 
374  const int fe_bit_number = it_fe->get()->getBitNumber();
375 
376  for (Range::const_pair_iterator p_eit = ents.pair_begin();
377  p_eit != ents.pair_end(); p_eit++) {
378 
379  // First and last handle
380  const EntityHandle first = p_eit->first;
381  const EntityHandle second = p_eit->second;
382 
383  // Get UId
384  UId first_uid =
385  EntFiniteElement::getGlobalUniqueIdCalculate(first, fe_bit_number);
386  UId second_uid =
387  EntFiniteElement::getGlobalUniqueIdCalculate(second, fe_bit_number);
388 
389  // Find and remove adjacencies
390  FieldEntityEntFiniteElementAdjacencyMap_multiIndex::index<
391  FE_Unique_mi_tag>::type::iterator ait,
392  hi_ait;
393  ait = entFEAdjacencies.get<FE_Unique_mi_tag>().lower_bound(first_uid);
394  hi_ait = entFEAdjacencies.get<FE_Unique_mi_tag>().upper_bound(second_uid);
395  entFEAdjacencies.get<FE_Unique_mi_tag>().erase(ait, hi_ait);
396  }
397  }
399 }
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
UId getGlobalUniqueIdCalculate() const
Generate UId for finite element entity.
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:255
FiniteElement_multiIndex finiteElements
finite elements
Definition: Core.hpp:251
int verbose
Verbosity level.
Definition: Core.hpp:905
uint128_t UId
Unique Id.
Definition: Types.hpp:41

◆ clear_database()

MoFEMErrorCode MoFEM::Core::clear_database ( int  verb = DEFAULT_VERBOSITY)
protectedvirtual

Clear database.

Parameters
verbVerbosity level
Returns
Error code

Implements MoFEM::CoreInterface.

Definition at line 497 of file Core.cpp.

497  {
499  if (verb == -1)
500  verb = verbose;
501  CHKERR clearMap();
503 }
MoFEMErrorCode clearMap()
Cleaning database.
Definition: Core.cpp:246
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_dofs_fields() [1/2]

MoFEMErrorCode MoFEM::Core::clear_dofs_fields ( const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Clear dofs by ents

Implements MoFEM::CoreInterface.

Definition at line 61 of file DeleteCore.cpp.

61  {
63  if (verb == -1)
64  verb = verbose;
65 
66  for (Range::const_pair_iterator p_eit = ents.pair_begin();
67  p_eit != ents.pair_end(); p_eit++) {
68  EntityHandle first = p_eit->first;
69  EntityHandle second = p_eit->second;
70  // get dofs range
71  DofEntityByEnt::iterator dit, hi_dit;
72  dit = dofsField.get<Ent_mi_tag>().lower_bound(first);
73  if (dit == dofsField.get<Ent_mi_tag>().end())
74  continue;
75  hi_dit = dofsField.get<Ent_mi_tag>().upper_bound(second);
76  // finally clear dofs
77  dofsField.get<Ent_mi_tag>().erase(dit,hi_dit);
78  }
80 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
int verbose
Verbosity level.
Definition: Core.hpp:905

◆ clear_dofs_fields() [2/2]

MoFEMErrorCode MoFEM::Core::clear_dofs_fields ( const std::string  name,
const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Clear dofs by field name and ents

Implements MoFEM::CoreInterface.

Definition at line 82 of file DeleteCore.cpp.

83  {
85  if (verb == -1)
86  verb = verbose;
87 
88  for (Range::const_pair_iterator p_eit = ents.pair_begin();
89  p_eit != ents.pair_end(); p_eit++) {
90  EntityHandle first = p_eit->first;
91  EntityHandle second = p_eit->second;
92  DofEntityByNameAndEnt::iterator dit, hi_dit;
93  dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
94  boost::make_tuple(name, first));
95  hi_dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
96  boost::make_tuple(name, second));
97  dofsField.get<Composite_Name_And_Ent_mi_tag>().erase(dit, hi_dit);
98  }
100 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
int verbose
Verbosity level.
Definition: Core.hpp:905

◆ clear_dofs_fields_by_bit_ref()

MoFEMErrorCode MoFEM::Core::clear_dofs_fields_by_bit_ref ( const BitRefLevel  bit,
const BitRefLevel  mask,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Clear dofs by bit level

Implements MoFEM::CoreInterface.

Definition at line 50 of file DeleteCore.cpp.

51  {
53  if (verb == -1)
54  verb = verbose;
55  Range ents;
56  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents, verb);
57  CHKERR clear_dofs_fields(ents, verb);
59 }
#define MoFEMFunctionBeginHot
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:500
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:507
MoFEMErrorCode clear_dofs_fields(const Range ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:61
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905

◆ clear_ents_fields() [1/2]

MoFEMErrorCode MoFEM::Core::clear_ents_fields ( const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Clear entities by field name

Implements MoFEM::CoreInterface.

Definition at line 115 of file DeleteCore.cpp.

115  {
117  if (verb == -1)
118  verb = verbose;
119  CHKERR clear_dofs_fields(ents, verb);
121  for (Range::const_pair_iterator p_eit = ents.pair_begin();
122  p_eit != ents.pair_end(); p_eit++) {
123  EntityHandle first = p_eit->first;
124  EntityHandle second = p_eit->second;
125  FieldEntity_multiIndex::index<Ent_mi_tag>::type::iterator dit, hi_dit;
126  dit = entsFields.get<Ent_mi_tag>().lower_bound(first);
127  hi_dit = entsFields.get<Ent_mi_tag>().upper_bound(second);
128  entsFields.get<Ent_mi_tag>().erase(dit, hi_dit);
129  }
131 }
MoFEMErrorCode clear_adjacencies_entities(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for entities on given bit level
Definition: DeleteCore.cpp:205
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode clear_dofs_fields(const Range ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:61
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_ents_fields() [2/2]

MoFEMErrorCode MoFEM::Core::clear_ents_fields ( const std::string  name,
const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Clear entities by field name

Implements MoFEM::CoreInterface.

Definition at line 133 of file DeleteCore.cpp.

134  {
136  if (verb == -1)
137  verb = verbose;
138  CHKERR clear_dofs_fields(name, ents, verb);
139  CHKERR clear_adjacencies_entities(name, ents, verb);
140  for (Range::const_pair_iterator p_eit = ents.pair_begin();
141  p_eit != ents.pair_end(); p_eit++) {
142  EntityHandle first = p_eit->first;
143  EntityHandle second = p_eit->second;
144  FieldEntity_multiIndex::index<Composite_Name_And_Ent_mi_tag>::type::iterator
145  dit,
146  hi_dit;
147  dit = entsFields.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
148  boost::make_tuple(name, first));
149  hi_dit = entsFields.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
150  boost::make_tuple(name, second));
151  entsFields.get<Composite_Name_And_Ent_mi_tag>().erase(dit, hi_dit);
152  }
154 }
MoFEMErrorCode clear_adjacencies_entities(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for entities on given bit level
Definition: DeleteCore.cpp:205
FieldEntity_multiIndex entsFields
entities on fields
Definition: Core.hpp:248
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode clear_dofs_fields(const Range ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:61
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_ents_fields_by_bit_ref()

MoFEMErrorCode MoFEM::Core::clear_ents_fields_by_bit_ref ( const BitRefLevel  bit,
const BitRefLevel  mask,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

Clear ents by bit level

Implements MoFEM::CoreInterface.

Definition at line 102 of file DeleteCore.cpp.

103  {
105  if (verb == -1)
106  verb = verbose;
107  Range ents;
108  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents, verb);
109  CHKERR clear_dofs_fields(ents, verb);
111  CHKERR clear_ents_fields(ents, verb);
113 }
MoFEMErrorCode clear_adjacencies_entities(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for entities on given bit level
Definition: DeleteCore.cpp:205
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
MoFEMErrorCode clear_ents_fields(const Range ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:115
MoFEMErrorCode clear_dofs_fields(const Range ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:61
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_finite_elements() [1/2]

MoFEMErrorCode MoFEM::Core::clear_finite_elements ( const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear finite elements

Implements MoFEM::CoreInterface.

Definition at line 293 of file DeleteCore.cpp.

293  {
295  if (verb == -1)
296  verb = verbose;
298  for (Range::const_pair_iterator p_eit = ents.pair_begin();
299  p_eit != ents.pair_end(); p_eit++) {
300  EntityHandle first = p_eit->first;
301  EntityHandle second = p_eit->second;
302  EntFiniteElement_multiIndex::index<Ent_mi_tag>::type::iterator fit, hi_fit;
303  fit = entsFiniteElements.get<Ent_mi_tag>().lower_bound(first);
304  hi_fit = entsFiniteElements.get<Ent_mi_tag>().upper_bound(second);
305  entsFiniteElements.get<Ent_mi_tag>().erase(fit, hi_fit);
306  }
308 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
MoFEMErrorCode clear_adjacencies_finite_elements(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for finite elements on given bit level
Definition: DeleteCore.cpp:334
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252

◆ clear_finite_elements() [2/2]

MoFEMErrorCode MoFEM::Core::clear_finite_elements ( const std::string  name,
const Range  ents,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear finite elements

Implements MoFEM::CoreInterface.

Definition at line 310 of file DeleteCore.cpp.

311  {
313  if (verb == -1)
314  verb = verbose;
315  CHKERR clear_adjacencies_finite_elements(name, ents, verb);
316  for (Range::const_pair_iterator p_eit = ents.pair_begin();
317  p_eit != ents.pair_end(); p_eit++) {
318  EntityHandle first = p_eit->first;
319  EntityHandle second = p_eit->second;
320  EntFiniteElement_multiIndex::index<
321  Composite_Name_And_Ent_mi_tag>::type::iterator fit,
322  hi_fit;
323  fit = entsFiniteElements.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
324  boost::make_tuple(name, first));
325  hi_fit =
326  entsFiniteElements.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
327  boost::make_tuple(name, second));
328  fit = entsFiniteElements.get<Composite_Name_And_Ent_mi_tag>().erase(fit,
329  hi_fit);
330  }
332 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:905
MoFEMErrorCode clear_adjacencies_finite_elements(const BitRefLevel bit, const BitRefLevel mask, int verb=DEFAULT_VERBOSITY)
clear adjacency map for finite elements on given bit level
Definition: DeleteCore.cpp:334
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252

◆ clear_finite_elements_by_bit_ref()

MoFEMErrorCode MoFEM::Core::clear_finite_elements_by_bit_ref ( const BitRefLevel  bit,
const BitRefLevel  mask,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear finite elements

Implements MoFEM::CoreInterface.

Definition at line 281 of file DeleteCore.cpp.

283  {
285  if (verb == -1)
286  verb = verbose;
287  Range ents;
288  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents, verb);
289  CHKERR clear_finite_elements(ents, verb);
291 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode clear_finite_elements(const Range ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:293
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_inactive_dofs()

MoFEMErrorCode MoFEM::Core::clear_inactive_dofs ( int  verb = DEFAULT_VERBOSITY)
protectedvirtual

Clear inactive dofs

Implements MoFEM::CoreInterface.

Definition at line 34 of file DeleteCore.cpp.

34  {
36  if (verb == -1)
37  verb = verbose;
38  Range ents;
39  for (DofEntity_multiIndex::iterator dit = dofsField.begin();
40  dit != dofsField.end();) {
41  if (!dit->get()->getActive()) {
42  dit = dofsField.erase(dit);
43  } else {
44  ++dit;
45  }
46  }
48 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
int verbose
Verbosity level.
Definition: Core.hpp:905
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:406

◆ clear_problem()

MoFEMErrorCode MoFEM::Core::clear_problem ( const std::string  name,
int  verb = DEFAULT_VERBOSITY 
)
protectedvirtual

clear problem

Implements MoFEM::CoreInterface.

Definition at line 241 of file ProblemsCore.cpp.