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...
 
- 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...
 

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)
 

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 resolve_shared_ents (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_ents (const std::string &name, const std::string &fe_name, int verb=DEFAULT_VERBOSITY)
 resolve shared entities for finite elements in the problem More...
 
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
 

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_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_smoothing.cpp, meshset_to_vtk.cpp, minimal_surface_area.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:863
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:851
boost::shared_ptr< WrapMPIComm > wrapMPIComm
Definition: Core.hpp:899
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
PetscLogEvent MOFEM_EVENT_operator
Event for evaluating operator of finite element.
Definition: Core.hpp:849
static const MOFEMuuid IDD_MOFEMUnknown
PetscLogEvent MOFEM_EVENT_createMat
Definition: Core.hpp:852
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:847
PetscBool initaliseAndBuildField
Definition: Core.hpp:917
int rAnk
MOFEM communicator rank.
Definition: Core.hpp:864
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:913
PetscBool initaliseAndBuildFiniteElements
Definition: Core.hpp:920
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:861
int verbose
Verbosity level.
Definition: Core.hpp:901
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:913
boost::ptr_map< unsigned long, UnknownInterface > iFaces
Hash map of pointers to interfaces.
Definition: Core.hpp:910

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 269 of file FieldCore.cpp.

271  {
272  Range ents_dim = ents.subset_by_dimension(dim);
273  return addEntsToFieldByDim(ents_dim, dim, name, verb);
274 }
MoFEMErrorCode addEntsToFieldByDim(const Range &ents, const int dim, const std::string &name, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:190

◆ 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 289 of file FieldCore.cpp.

292  {
294  Range ents;
295  CHKERR get_moab().get_entities_by_dimension(meshset, dim, ents, recursive);
296  CHKERR addEntsToFieldByDim(ents, dim, name, verb);
298 }
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:190

◆ 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 276 of file FieldCore.cpp.

279  {
281  Range ents_type = ents.subset_by_type(type);
282  if (!ents_type.empty()) {
283  const int dim = get_moab().dimension_from_handle(ents_type[0]);
284  CHKERR addEntsToFieldByDim(ents_type, dim, name, verb);
285  }
287 }
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:190
#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 300 of file FieldCore.cpp.

303  {
305  Range ents;
306  CHKERR get_moab().get_entities_by_type(meshset, type, ents, recursive);
307  if (!ents.empty()) {
308  const int dim = get_moab().dimension_from_handle(ents[0]);
309  CHKERR addEntsToFieldByDim(ents, dim, name, verb);
310  }
312 }
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:190
#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:860
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:912
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:901
#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:912
#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:912
#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:912
#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:912
#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:912
#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_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_OPAQUE, th_field_data,
137  MB_TAG_CREAT | MB_TAG_BYTES | 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, 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(), sizeof(ApproximationOrder),
149  MB_TYPE_OPAQUE, th_app_order,
150  MB_TAG_CREAT | MB_TAG_BYTES | MB_TAG_SPARSE, &def_ApproximationOrder);
151  // rank
152  int def_rank = 1;
153  const std::string tag_rank_name = "_Field_Rank_" + name;
154  CHKERR get_moab().tag_get_handle(
155  tag_rank_name.c_str(), sizeof(FieldCoefficientsNumber), MB_TYPE_OPAQUE,
156  th_rank, MB_TAG_CREAT | MB_TAG_BYTES | MB_TAG_SPARSE, &def_rank);
157  CHKERR get_moab().tag_set_data(th_rank, &meshset, 1, &nb_of_coefficients);
158 
159  // add meshset
160  std::pair<Field_multiIndex::iterator, bool> p;
161  CoordSystemsManager *cs_manger_ptr;
162  CHKERR getInterface(cs_manger_ptr);
163  boost::shared_ptr<CoordSys> undefined_cs_ptr;
164  CHKERR cs_manger_ptr->getCoordSysPtr("UNDEFINED", undefined_cs_ptr);
165  int sys_name_size[1];
166  sys_name_size[0] = undefined_cs_ptr->getName().size();
167  void const *sys_name[] = {&*undefined_cs_ptr->getNameRef().begin()};
168  CHKERR get_moab().tag_set_by_ptr(cs_manger_ptr->get_th_CoordSysName(),
169  &meshset, 1, sys_name, sys_name_size);
170  EntityHandle coord_sys_id = undefined_cs_ptr->getMeshset();
171  CHKERR get_moab().add_entities(coord_sys_id, &meshset, 1);
172  p = fIelds.insert(
173  boost::make_shared<Field>(moab, meshset, undefined_cs_ptr));
174  if (bh == MF_EXCL) {
175  if (!p.second)
176  SETERRQ1(PETSC_COMM_SELF, MOFEM_NOT_FOUND,
177  "field not inserted %s (top tip, it could be already there)",
178  Field(moab, meshset, undefined_cs_ptr).getName().c_str());
179  }
180  if (verb > QUIET) {
181  std::ostringstream ss;
182  ss << "add: " << **p.first << std::endl;
183  PetscPrintf(cOmm, ss.str().c_str());
184  }
185  }
186 
188 }
Tag th_FieldSpace
Definition: Core.hpp:204
Tag th_FieldName_DataNamePrefix
Definition: Core.hpp:204
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
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:912
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 FieldCoefficientsNumber
Number of field coefficients.
Definition: Types.hpp:38
int verbose
Verbosity level.
Definition: Core.hpp:901
#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:860
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:912
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:901
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:901
#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 190 of file FieldCore.cpp.

191  {
192 
193  *buildMoFEM = 0;
194  EntityHandle idm = no_handle;
195  if (verb == -1)
196  verb = verbose;
198  idm = get_field_meshset(name);
199  FieldSpace space;
200  CHKERR get_moab().tag_get_data(th_FieldSpace, &idm, 1, &space);
201  std::vector<int> nb_ents_on_dim(3, 0);
202  switch (space) {
203  case L2:
204  CHKERR get_moab().add_entities(idm, ents);
205  if (verb >= VERY_VERBOSE) {
206  std::ostringstream ss;
207  ss << "add entities to field " << name;
208  ss << " nb. add ents " << ents.size();
209  ss << std::endl;
210  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
211  }
212  break;
213  case H1:
214  CHKERR get_moab().add_entities(idm, ents);
215  for (int dd = 0; dd != dim; ++dd) {
216  Range adj_ents;
217  CHKERR get_moab().get_adjacencies(ents, dd, false, adj_ents,
218  moab::Interface::UNION);
219  if (dd == 0) {
220  Range topo_nodes;
221  CHKERR get_moab().get_connectivity(ents, topo_nodes, true);
222  Range mid_nodes;
223  CHKERR get_moab().get_connectivity(ents, mid_nodes, false);
224  mid_nodes = subtract(mid_nodes, topo_nodes);
225  adj_ents = subtract(adj_ents, mid_nodes);
226  }
227  CHKERR get_moab().add_entities(idm, adj_ents);
228  nb_ents_on_dim[dd] = adj_ents.size();
229  }
230  break;
231  case HCURL:
232  CHKERR get_moab().add_entities(idm, ents);
233  for (int dd = 1; dd != dim; ++dd) {
234  Range adj_ents;
235  CHKERR get_moab().get_adjacencies(ents, dd, false, adj_ents,
236  moab::Interface::UNION);
237  CHKERR get_moab().add_entities(idm, adj_ents);
238  nb_ents_on_dim[dd] = adj_ents.size();
239  }
240  break;
241  case HDIV:
242  CHKERR get_moab().add_entities(idm, ents);
243  if (dim > 2) {
244  Range adj_ents;
245  CHKERR get_moab().get_adjacencies(ents, 2, false, adj_ents,
246  moab::Interface::UNION);
247  CHKERR get_moab().add_entities(idm, adj_ents);
248  nb_ents_on_dim[2] = adj_ents.size();
249  }
250  break;
251  default:
252  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
253  "sorry, unknown space added to entity");
254  }
255  if (verb >= VERY_VERBOSE) {
256  std::ostringstream ss;
257  ss << "add entities to field " << name;
258  ss << " nb. add ents " << ents.size();
259  ss << " nb. add faces " << nb_ents_on_dim[2];
260  ss << " nb. add edges " << nb_ents_on_dim[1];
261  ss << " nb. add nodes " << nb_ents_on_dim[0];
262  ss << std::endl;
263  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
264  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
265  }
267 }
Tag th_FieldSpace
Definition: Core.hpp:204
field with continuous normal traction
Definition: definitions.h:172
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
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:912
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:901
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:901
#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:860
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:901
#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 877 of file FECore.cpp.

877  {
879  if (verb == DEFAULT_VERBOSITY)
880  verb = verbose;
881  if (!((*buildMoFEM) & BUILD_FIELD))
882  SETERRQ(cOmm, MOFEM_NOT_FOUND, "field not build");
883  if (!((*buildMoFEM) & BUILD_FE))
884  SETERRQ(cOmm, MOFEM_NOT_FOUND, "fe not build");
885  for (Range::const_pair_iterator peit = ents.pair_begin();
886  peit != ents.pair_end(); ++peit) {
887  EntFiniteElement_multiIndex::index<Ent_mi_tag>::type::iterator fit, hi_fit;
888  fit = entsFiniteElements.get<Ent_mi_tag>().lower_bound(peit->first);
889  hi_fit = entsFiniteElements.get<Ent_mi_tag>().upper_bound(peit->second);
890  for (; fit != hi_fit; ++fit) {
891  if ((*fit)->getBitFieldIdRow().none() &&
892  (*fit)->getBitFieldIdCol().none() &&
893  (*fit)->getBitFieldIdData().none())
894  continue;
895  int by = BYROW;
896  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdCol())
897  by |= BYCOL;
898  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdData())
899  by |= BYDATA;
900  FieldEntityEntFiniteElementAdjacencyMap_change_ByWhat modify_row(by);
901  auto hint = entFEAdjacencies.end();
902  for (auto e : *(*fit)->row_field_ents_view) {
903  hint = entFEAdjacencies.emplace_hint(hint, e.lock(), *fit);
904  bool success = entFEAdjacencies.modify(hint, modify_row);
905  if (!success)
906  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
907  "modification unsuccessful");
908  }
909  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdCol()) {
910  int by = BYCOL;
911  if ((*fit)->getBitFieldIdCol() != (*fit)->getBitFieldIdData())
912  by |= BYDATA;
913  FieldEntityEntFiniteElementAdjacencyMap_change_ByWhat modify_col(by);
914  auto hint = entFEAdjacencies.end();
915  for (auto e : *(*fit)->col_field_ents_view) {
916  hint = entFEAdjacencies.emplace_hint(hint, e.lock(), *fit);
917  bool success = entFEAdjacencies.modify(hint, modify_col);
918  if (!success)
919  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
920  "modification unsuccessful");
921  }
922  }
923  if ((*fit)->getBitFieldIdRow() != (*fit)->getBitFieldIdData() ||
924  (*fit)->getBitFieldIdCol() != (*fit)->getBitFieldIdData()) {
925  FieldEntityEntFiniteElementAdjacencyMap_change_ByWhat modify_data(
926  BYDATA);
927  auto hint = entFEAdjacencies.end();
928  for (auto &e : *(*fit)->data_field_ents_view) {
929  hint = entFEAdjacencies.emplace_hint(hint, e, *fit);
930  bool success = entFEAdjacencies.modify(hint, modify_data);
931  if (!success)
932  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
933  "modification unsuccessful");
934  }
935  }
936  }
937  }
938  if (verb >= VERY_NOISY) {
940  }
941  if (verb >= VERBOSE) {
942  PetscSynchronizedPrintf(cOmm, "Nb. entFEAdjacencies %u\n",
943  entFEAdjacencies.size());
944  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
945  }
946  *buildMoFEM |= 1 << 2;
948 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
#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:912
FieldEntityEntFiniteElementAdjacencyMap_multiIndex entFEAdjacencies
adjacencies of elements to dofs
Definition: Core.hpp:255
int verbose
Verbosity level.
Definition: Core.hpp:901
EntFiniteElement_multiIndex entsFiniteElements
finite element entities
Definition: Core.hpp:252
MoFEMErrorCode list_adjacencies() const
list adjacencies
Definition: FieldCore.cpp:919

◆ 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 962 of file FECore.cpp.

962  {
964  if (verb == -1)
965  verb = verbose;
966  CHKERR build_adjacencies(bit, BitRefLevel().set(), verb);
967 
969 }
#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:877
#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:901
#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 950 of file FECore.cpp.

951  {
953  if (verb == -1)
954  verb = verbose;
955  Range ents;
956  CHKERR BitRefManager(*this).getEntitiesByRefLevel(bit, mask, ents);
957 
958  CHKERR build_adjacencies(ents, verb);
959 
961 }
#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:877
#define CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:901
#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 864 of file FieldCore.cpp.

864  {
866  auto miit = fIelds.get<FieldName_mi_tag>().find(field_name);
867  if (miit == fIelds.get<FieldName_mi_tag>().end()) {
868  SETERRQ1(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "Field < %s > not found",
869  field_name.c_str());
870  }
871  CHKERR buildField((*miit), verb);
872  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
874 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
#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:783
#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 876 of file FieldCore.cpp.

876  {
878  if (verb == -1)
879  verb = verbose;
880  auto &set_id = fIelds.get<BitFieldId_mi_tag>();
881  for (auto miit = set_id.begin(); miit != set_id.end(); miit++) {
882  CHKERR buildField((*miit), verb);
883  }
884  *buildMoFEM = 1 << 0;
885  if (verb > QUIET) {
886  PetscSynchronizedPrintf(cOmm, "Nb. dofs %u\n", dofsField.size());
887  }
888  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
890  // return 0;
891 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
#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:912
#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:783
int verbose
Verbosity level.
Definition: Core.hpp:901
#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 793 of file FECore.cpp.

793  {
795  if (verb == -1)
796  verb = verbose;
797 
798  FiniteElement_multiIndex::iterator fe_miit = finiteElements.begin();
799 
800  // loop Finite Elements
801  for (; fe_miit != finiteElements.end(); fe_miit++) {
802  if (verb > 0)
803  PetscPrintf(cOmm, "Build Finite Elements %s\n",
804  (*fe_miit)->getName().c_str());
805  CHKERR buildFiniteElements(*fe_miit, NULL, verb);
806  }
807 
808  if (verb > 0) {
809  PetscSynchronizedPrintf(cOmm, "Nb. FEs %u\n", entsFiniteElements.size());
810  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
811  typedef EntFiniteElement_multiIndex::index<BitFEId_mi_tag>::type
812  FiniteElementById;
813  FiniteElementById &finite_elements_by_id =
814  entsFiniteElements.get<BitFEId_mi_tag>();
815  FiniteElement_multiIndex::iterator fe_id_it = finiteElements.begin();
816  for (; fe_id_it != finiteElements.end(); fe_id_it++) {
817  FiniteElementById::iterator miit =
818  finite_elements_by_id.lower_bound((*fe_id_it)->getId());
819  FiniteElementById::iterator hi_miit =
820  finite_elements_by_id.upper_bound((*fe_id_it)->getId());
821  int count = std::distance(miit, hi_miit);
822  std::ostringstream ss;
823  ss << *(*fe_id_it) << " 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:860
#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:912
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:901
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:860
#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  FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type::iterator
847  fe_miit = finiteElements.get<FiniteElement_name_mi_tag>().find(fe_name);
848  if (fe_miit == finiteElements.get<FiniteElement_name_mi_tag>().end()) {
849  SETERRQ1(cOmm, MOFEM_NOT_FOUND, "Finite element <%s> not found",
850  fe_name.c_str());
851  }
852 
853  if (verb >= VERBOSE)
854  PetscPrintf(cOmm, "Build Finite Elements %s\n", fe_name.c_str());
855  CHKERR buildFiniteElements(*fe_miit, ents_ptr, verb);
856 
857  if (verb >= VERBOSE) {
858  typedef EntFiniteElement_multiIndex::index<BitFEId_mi_tag>::type
859  FiniteElementById;
860  FiniteElementById &finite_elements_by_id =
861  entsFiniteElements.get<BitFEId_mi_tag>();
862  FiniteElementById::iterator miit =
863  finite_elements_by_id.lower_bound((*fe_miit)->getId());
864  FiniteElementById::iterator hi_miit =
865  finite_elements_by_id.upper_bound((*fe_miit)->getId());
866  int count = std::distance(miit, hi_miit);
867  std::ostringstream ss;
868  ss << *(*fe_miit) << " Nb. FEs " << count << std::endl;
869  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
870  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
871  }
872 
873  *buildMoFEM |= 1 << 1;
875 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
#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:912
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:901
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:901
#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:912
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:901

◆ buildField()

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

Definition at line 783 of file FieldCore.cpp.

784  {
786  if (verb == -1)
787  verb = verbose;
788  if (verb > QUIET) {
789  PetscSynchronizedPrintf(cOmm, "Build Field %s (rank %d)\n",
790  field->getName().c_str(), rAnk);
791  }
792  std::map<EntityType, int> dof_counter;
793  std::map<EntityType, int> inactive_dof_counter;
794 
795  switch (field->getSpace()) {
796  case NOFIELD:
797  CHKERR buildFieldForNoField(field->getId(), dof_counter, verb);
798  break;
799  case L2:
800  case H1:
801  case HCURL:
802  case HDIV:
803  CHKERR buildFieldForL2H1HcurlHdiv(field->getId(), dof_counter,
804  inactive_dof_counter, verb);
805  break;
806  default:
807  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED, "not implemented");
808  }
809 
810  if (verb > QUIET) {
811  int nb_added_dofs = 0;
812  int nb_inactive_added_dofs = 0;
813  for (auto const &it : dof_counter) {
814  switch (it.first) {
815  case MBVERTEX:
816  PetscSynchronizedPrintf(cOmm,
817  "nb added dofs (vertices) %d (inactive %d)\n",
818  it.second, inactive_dof_counter[it.first]);
819  break;
820  case MBEDGE:
821  PetscSynchronizedPrintf(cOmm,
822  "nb added dofs (edges) %d (inactive %d)\n",
823  it.second, inactive_dof_counter[it.first]);
824  break;
825  case MBTRI:
826  PetscSynchronizedPrintf(cOmm,
827  "nb added dofs (triangles) %d (inactive %d)\n",
828  it.second, inactive_dof_counter[it.first]);
829  break;
830  case MBQUAD:
831  PetscSynchronizedPrintf(cOmm,
832  "nb added dofs (quads) %d (inactive %d)\n",
833  it.second, inactive_dof_counter[it.first]);
834  break;
835  case MBTET:
836  PetscSynchronizedPrintf(cOmm, "nb added dofs (tets) %d (inactive %d)\n",
837  it.second, inactive_dof_counter[it.first]);
838  break;
839  case MBPRISM:
840  PetscSynchronizedPrintf(cOmm,
841  "nb added dofs (prisms) %d (inactive %d)\n",
842  it.second, inactive_dof_counter[it.first]);
843  break;
844  case MBENTITYSET:
845  PetscSynchronizedPrintf(cOmm,
846  "nb added dofs (meshsets) %d (inactive %d)\n",
847  it.second, inactive_dof_counter[it.first]);
848  break;
849  default:
850  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED, "not implemented");
851  }
852  nb_added_dofs += it.second;
853  nb_inactive_added_dofs += inactive_dof_counter[it.first];
854  }
855  if (verb > QUIET) {
856  PetscSynchronizedPrintf(cOmm,
857  "nb added dofs %d (number of inactive dofs %d)\n",
858  nb_added_dofs, nb_inactive_added_dofs);
859  }
860  }
862 }
field with continuous normal traction
Definition: definitions.h:172
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
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:864
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:670
int verbose
Verbosity level.
Definition: Core.hpp:901
MoFEMErrorCode buildFieldForNoField(const BitFieldId id, std::map< EntityType, int > &dof_counter, int verb=DEFAULT_VERBOSITY)
Definition: FieldCore.cpp:589
#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 670 of file FieldCore.cpp.

672  {
674  if (verb == -1)
675  verb = verbose;
676 
677  // Find field
678  auto &set_id = fIelds.get<BitFieldId_mi_tag>();
679  auto field_it = set_id.find(id);
680  if (field_it == set_id.end()) {
681  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "Field not found");
682  }
683  const int rank = field_it->get()->getNbOfCoeffs();
684  const boost::string_ref &field_name = field_it->get()->getNameRef();
685 
686  // Ents in the field meshset
687  Range ents_of_id_meshset;
688  CHKERR get_moab().get_entities_by_handle((*field_it)->meshSet,
689  ents_of_id_meshset, false);
690  if (verb > VERY_NOISY) {
691  PetscSynchronizedPrintf(PETSC_COMM_SELF, "Ents in field %s meshset %d\n",
692  (*field_it)->getName().c_str(),
693  ents_of_id_meshset.size());
694  }
695 
696  for (auto p_eit = ents_of_id_meshset.pair_begin();
697  p_eit != ents_of_id_meshset.pair_end(); ++p_eit) {
698 
699  const EntityHandle first = p_eit->first;
700  const EntityHandle second = p_eit->second;
701 
702  auto feit = entsFields.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
703  boost::make_tuple(field_name, first));
704  if (feit == entsFields.get<Composite_Name_And_Ent_mi_tag>().end())
705  continue;
706  auto hi_feit = entsFields.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
707  boost::make_tuple(field_name, second));
708 
709  // If there are DOFs in that range is more pragmatic to remove them rather
710  // than to find sub-ranges or make them inactive
711  auto dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().lower_bound(
712  boost::make_tuple(field_name, first));
713  auto hi_dit = dofsField.get<Composite_Name_And_Ent_mi_tag>().upper_bound(
714  boost::make_tuple(field_name, second));
715  dofsField.get<Composite_Name_And_Ent_mi_tag>().erase(dit, hi_dit);
716 
717  // Add vertices DOFs by bulk
718  boost::shared_ptr<std::vector<DofEntity>> dofs_array =
719  boost::make_shared<std::vector<DofEntity>>(std::vector<DofEntity>());
720  // Add Sequence of DOFs to sequence container as weak_ptr
721  int nb_dofs_on_ents = 0;
722  for (auto tmp_feit = feit; tmp_feit != hi_feit; ++tmp_feit) {
723  nb_dofs_on_ents += rank * tmp_feit->get()->getOrderNbDofs(
724  tmp_feit->get()->getMaxOrder());
725  }
726 
727  // Reserve memory
728  dofs_array->reserve(nb_dofs_on_ents);
729 
730  // Create DOFs
731  for (; feit != hi_feit; ++feit) {
732  // Create dofs instances and shared pointers
733  int DD = 0;
734  // Loop orders (loop until max entity order is set)
735  for (int oo = 0; oo <= feit->get()->getMaxOrder(); ++oo) {
736  // Loop nb. dofs at order oo
737  for (int dd = 0; dd < feit->get()->getOrderNbDofsDiff(oo); ++dd) {
738  // Loop rank
739  for (int rr = 0; rr < rank; ++rr, ++DD) {
740  dofs_array->emplace_back(*feit, oo, rr, DD, true);
741  ++dof_counter[feit->get()->getEntType()];
742  }
743  }
744  }
745  if (DD > feit->get()->getNbDofsOnEnt()) {
746  std::ostringstream ss;
747  ss << "rank " << rAnk << " ";
748  ss << **feit << std::endl;
749  SETERRQ3(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
750  "Expected number of DOFs on entity not equal to number added "
751  "to database (DD = %d != %d = "
752  "feit->get()->getNbDofsOnEnt())\n"
753  "%s",
754  DD, feit->get()->getNbDofsOnEnt(), ss.str().c_str());
755  }
756  }
757 
758  // Insert into Multi-Index container
759  int dofs_field_size0 = dofsField.size();
760  auto hint = dofsField.end();
761  for (auto &v : *dofs_array)
762  hint = dofsField.emplace_hint(hint, dofs_array, &v);
763 
764  // Add Sequence of DOFs to sequence container as weak_ptr
765  field_it->get()->getDofSequenceContainer()->push_back(dofs_array);
766 
767  // Check data consistency
768  if (PetscUnlikely(static_cast<int>(dofs_array.use_count()) !=
769  static_cast<int>(dofs_array->size() + 1))) {
770  SETERRQ2(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
771  "Wrong use count %d != %d", dofs_array.use_count(),
772  dofs_array->size() + 1);
773  }
774  if (dofs_field_size0 + dofs_array->size() != dofsField.size()) {
775  SETERRQ2(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
776  "Wrong number of inserted DOFs %d != %d", dofs_array->size(),
777  dofsField.size() - dofs_field_size0);
778  }
779  }
781 }
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:864
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:901
#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 589 of file FieldCore.cpp.

590  {
592  if (verb == -1)
593  verb = verbose;
594  // field it
595  auto &set_id = fIelds.get<BitFieldId_mi_tag>();
596  // find fiels
597  auto miit = set_id.find(id);
598  if (miit == set_id.end()) {
599  SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "field not found");
600  }
601 
602  // ents in the field meshset
603  Range ents_of_id_meshset;
604  CHKERR get_moab().get_entities_by_handle((*miit)->meshSet, ents_of_id_meshset,
605  false);
606  if (verb > VERY_NOISY) {
607  PetscSynchronizedPrintf(cOmm, "ents in field %s meshset %d\n",
608  (*miit)->getName().c_str(),
609  ents_of_id_meshset.size());
610  }
611  for (Range::iterator eit = ents_of_id_meshset.begin();
612  eit != ents_of_id_meshset.end(); eit++) {
613  // serch if field meshset is in database
614  RefEntity_multiIndex::index<Ent_mi_tag>::type::iterator miit_ref_ent;
615  miit_ref_ent = refinedEntities.get<Ent_mi_tag>().find(*eit);
616  if (miit_ref_ent == refinedEntities.get<Ent_mi_tag>().end()) {
617  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
618  "Entity is not in MoFEM database, entities in field meshset need "
619  "to be seeded (i.e. bit ref level add to them)");
620  }
621  std::pair<FieldEntity_multiIndex::iterator, bool> e_miit;
622  // create database entity
623  e_miit = entsFields.insert(
624  boost::make_shared<FieldEntity>(*miit, *miit_ref_ent));
625  // this is nor real field in space (set order to zero)
626  bool success = entsFields.modify(e_miit.first, FieldEntity_change_order(0));
627  if (!success)
628  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
629  "modification unsuccessful");
630  FieldCoefficientsNumber rank = 0;
631  // create dofs on this entity (nb. of dofs is equal to rank)
632  for (; rank < (*e_miit.first)->getNbOfCoeffs(); rank++) {
633  std::pair<DofEntity_multiIndex::iterator, bool> d_miit;
634  // check if dof is in darabase
635  d_miit.first = dofsField.project<0>(dofsField.get<Unique_mi_tag>().find(
636  DofEntity::getGlobalUniqueIdCalculate(rank, *(e_miit.first))));
637  // if dof is not in database
638  if (d_miit.first == dofsField.end()) {
639  // insert dof
640  d_miit = dofsField.insert(
641  boost::make_shared<DofEntity>(*(e_miit.first), 0, rank, rank));
642  if (d_miit.second) {
643  dof_counter[MBENTITYSET]++; // Count entities in the meshset
644  }
645  bool success =
646  dofsField.modify(d_miit.first, DofEntity_active_change(true));
647  if (!success)
648  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
649  "modification unsuccessful");
650  }
651  }
652  }
653  if (verb > VERY_VERBOSE) {
654  typedef DofEntity_multiIndex::index<FieldName_mi_tag>::type DofsByName;
655  DofsByName &set = dofsField.get<FieldName_mi_tag>();
656  DofsByName::iterator miit2 = set.lower_bound(miit->get()->getNameRef());
657  DofsByName::iterator hi_miit2 = set.upper_bound(miit->get()->getNameRef());
658  assert(miit2 != hi_miit2);
659  for (; miit2 != hi_miit2; miit2++) {
660  std::ostringstream ss;
661  ss << *miit2 << std::endl;
662  ;
663  PetscSynchronizedPrintf(cOmm, ss.str().c_str());
664  }
665  PetscSynchronizedFlush(cOmm, PETSC_STDOUT);
666  }
668 }
DofEntity_multiIndex dofsField
dofs on fields
Definition: Core.hpp:249
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
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
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
static UId getGlobalUniqueIdCalculate(const DofIdx dof, const UId &ent_uid)
#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:901
#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  typedef RefElement_multiIndex::index<Ent_mi_tag>::type RefFiniteElementByEnt;
570  typedef Field_multiIndex::index<BitFieldId_mi_tag>::type FieldById;
571  FieldById &fields_by_id = fIelds.get<BitFieldId_mi_tag>();
572 
573  // get id of mofem fields for row, col and data
574  enum IntLoop { ROW = 0, COL, DATA, LAST };
575  BitFieldId fe_fields[LAST] = {fe.get()->getBitFieldIdRow(),
576  fe.get()->getBitFieldIdCol(),
577  fe.get()->getBitFieldIdData()};
578 
579  // get finite element meshset
580  EntityHandle meshset = get_finite_element_meshset(fe.get()->getId());
581 
582  // get entities from finite element meshset // if meshset
583  Range fe_ents;
584  CHKERR get_moab().get_entities_by_handle(meshset, fe_ents, false);
585 
586  if (ents_ptr)
587  fe_ents = intersect(fe_ents, *ents_ptr);
588 
589  // map entity uid to pointers
590  typedef std::vector<boost::weak_ptr<EntFiniteElement>> VecOfWeakFEPtrs;
591  typedef std::map<const UId *, VecOfWeakFEPtrs> MapEntUIdAndVecOfWeakFEPtrs;
592  MapEntUIdAndVecOfWeakFEPtrs ent_uid_and_fe_vec;
593  std::map<EntityHandle, boost::shared_ptr<std::vector<FEDofEntity>>>
594  data_dofs_array;
595  VecOfWeakFEPtrs processed_fes;
596  processed_fes.reserve(fe_ents.size());
597 
598  int last_row_field_ents_view_size = 0;
599  int last_col_field_ents_view_size = 0;
600 
601  FieldEntity_vector_view data_field_ents_view;
602 
603  // loop meshset finite element ents and add finite elements
604  for (Range::const_pair_iterator peit = fe_ents.const_pair_begin();
605  peit != fe_ents.const_pair_end(); peit++) {
606 
607  EntityHandle first = peit->first;
608  EntityHandle second = peit->second;
609 
610  // note: iterator is a wrapper
611  // check if is in refinedFiniteElements database
612  RefFiniteElementByEnt::iterator ref_fe_miit, hi_ref_fe_miit;
613  ref_fe_miit = 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  hi_ref_fe_miit =
622  refinedFiniteElements.get<Ent_mi_tag>().upper_bound(second);
623 
624  EntFiniteElement_multiIndex::iterator hint_p = entsFiniteElements.end();
625 
626  for (; ref_fe_miit != hi_ref_fe_miit; ref_fe_miit++) {
627 
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  if (fe_fields[ROW] == fe_fields[COL]) {
637  fe_raw_ptr->col_field_ents_view = fe_raw_ptr->row_field_ents_view;
638  } else {
639  if (fe_raw_ptr->col_field_ents_view ==
640  fe_raw_ptr->row_field_ents_view)
641  fe_raw_ptr->col_field_ents_view =
642  boost::make_shared<FieldEntity_vector_view>();
643  fe_raw_ptr->col_field_ents_view->reserve(last_col_field_ents_view_size);
644  }
645 
646  int nb_dofs_on_data = 0;
647 
648  for (unsigned int ii = 0; ii != BitFieldId().size(); ++ii) {
649 
650  // Common field id for ROW, COL and DATA
651  BitFieldId id_common = 0;
652  // Check if the field (ii) is added to finite element
653  for (int ss = 0; ss < LAST; ss++) {
654  id_common |= fe_fields[ss] & BitFieldId().set(ii);
655  }
656  if (id_common.none())
657  continue;
658 
659  // Find in database data associated with the field (ii)
660  const BitFieldId field_id = BitFieldId().set(ii);
661  FieldById::iterator miit = fields_by_id.find(field_id);
662  if (miit == fields_by_id.end()) {
663  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
664  "Data inconsistency");
665  }
666 
667 
668  // Loop over adjacencies of element and find field entities on those
669  // adjacencies, that create hash map map_uid_fe which is used later
670  const std::string field_name = miit->get()->getName();
671  const bool add_to_data = (field_id & fe_fields[DATA]).any();
672  const bool add_to_row = (field_id & fe_fields[ROW]).any();
673  const bool add_to_col = (field_id & fe_fields[COL]).any();
674 
675  // Entities adjacent to entities
676  Range adj_ents;
677 
678  // Resolve entities on element, those entities are used to build tag
679  // with dof uids on finite element tag
680  CHKERR fe_raw_ptr->getElementAdjacency(*miit, adj_ents);
681 
682  for (Range::pair_iterator p_eit = adj_ents.pair_begin();
683  p_eit != adj_ents.pair_end(); ++p_eit) {
684 
685  const EntityHandle first = p_eit->first;
686  const EntityHandle second = p_eit->second;
687 
688  typedef FieldEntity_multiIndex::index<
689  Composite_Name_And_Ent_mi_tag>::type FieldEntityByComposite;
690  auto &field_ents_by_name_and_ent =
691  entsFields.get<Composite_Name_And_Ent_mi_tag>();
692  FieldEntityByComposite::iterator meit;
693 
694  if (first == second)
695  meit = field_ents_by_name_and_ent.find(
696  boost::make_tuple(field_name, first));
697  else
698  meit = field_ents_by_name_and_ent.lower_bound(
699  boost::make_tuple(field_name, first));
700 
701  if (meit != field_ents_by_name_and_ent.end()) {
702 
703  decltype(meit) hi_meit;
704 
705  if (first == second) {
706  hi_meit = meit;
707  ++hi_meit;
708  } else
709  hi_meit = field_ents_by_name_and_ent.upper_bound(
710  boost::make_tuple(field_name, second));
711 
712  // create list of finite elements with this dof UId
713  for (; meit != hi_meit; ++meit) {
714  // Add entity to map with key entity uids pointers and data
715  // finite elements weak ptrs. I using pointers to uids instead
716  // uids because this is faster.
717  const UId *uid_ptr = &(meit->get()->getGlobalUniqueId());
718  auto &fe_vec = ent_uid_and_fe_vec[uid_ptr];
719  // get number of dofs on entities to pre-allocate memory for
720  // element
721  const int nb_dofs_on_ent = meit->get()->getNbDofsOnEnt();
722  if (add_to_data) {
723  nb_dofs_on_data += nb_dofs_on_ent;
724  data_field_ents_view.emplace_back(*meit);
725  }
726  if (add_to_row) {
727  fe_raw_ptr->row_field_ents_view->emplace_back(*meit);
728  }
729  if (add_to_col) {
730  if (fe_raw_ptr->col_field_ents_view !=
731  fe_raw_ptr->row_field_ents_view)
732  fe_raw_ptr->col_field_ents_view->emplace_back(*meit);
733  }
734  // add finite element to processed list
735  fe_vec.emplace_back(*hint_p);
736  }
737  }
738  }
739  }
740 
741  // Sort field ents by uid
742  auto uid_comp = [](const auto &a, const auto &b) {
743  return a.lock()->getGlobalUniqueId() < b.lock()->getGlobalUniqueId();
744  };
745 
746  sort(data_field_ents_view.begin(), data_field_ents_view.end(), uid_comp);
747  for (auto e : data_field_ents_view)
748  fe_raw_ptr->data_field_ents_view->emplace_back(e);
749 
750  sort(fe_raw_ptr->row_field_ents_view->begin(),
751  fe_raw_ptr->row_field_ents_view->end(), uid_comp);
752  last_row_field_ents_view_size = fe_raw_ptr->row_field_ents_view->size();
753 
754  if (fe_raw_ptr->col_field_ents_view != fe_raw_ptr->row_field_ents_view) {
755  sort(fe_raw_ptr->col_field_ents_view->begin(),
756  fe_raw_ptr->col_field_ents_view->end(), uid_comp);
757  last_col_field_ents_view_size = fe_raw_ptr->col_field_ents_view->size();
758  }
759 
760  // Clear finite element data structures
761  fe_raw_ptr->data_dofs->clear();
762 
763  // Reserve memory for data
764  auto data_dofs_array_vec = boost::make_shared<std::vector<FEDofEntity>>();
765  data_dofs_array[fe_raw_ptr->getEnt()] = data_dofs_array_vec;
766  data_dofs_array_vec->reserve(nb_dofs_on_data);
767 
768  fe_raw_ptr->getDofsSequence() = data_dofs_array_vec;
769 
770 
771  }
772  }
773 
774  typedef DofEntity_multiIndex::index<Unique_Ent_mi_tag>::type DofsByEntUId;
775  DofsByEntUId &dofs_by_ent_uid = dofsField.get<Unique_Ent_mi_tag>();
776 
777  // Loop over hash map, which has all entities on given elemnts
778  boost::shared_ptr<SideNumber> side_number_ptr;
779  for (auto &mit : ent_uid_and_fe_vec) {
780  auto range_dit = dofs_by_ent_uid.equal_range(*mit.first);
781  if (range_dit.first != range_dit.second) {
782  const BitFieldId field_id = range_dit.first->get()->getId();
783  if ((field_id & fe_fields[DATA]).any())
784  BuildFiniteElements<DATA>::addToData(range_dit, mit.second);
785  }
786  }
787 
789 
791 }
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:901
#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 994 of file FieldCore.cpp.

994  {
996  auto it = fIelds.get<FieldName_mi_tag>().find(name);
997  if (it == fIelds.get<FieldName_mi_tag>().end()) {
998  SETERRQ1(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
999  "field not found < %s >", name.c_str());
1000  }
1001  EntityHandle meshset = (*it)->getMeshset();
1002  int num_entities;
1003  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
1004  if (entsFields.get<FieldName_mi_tag>().count((*it)->getName()) >
1005  (unsigned int)num_entities) {
1006  SETERRQ1(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
1007  "not equal number of entities in meshset and field multiindex "
1008  "< %s >",
1009  name.c_str());
1010  }
1012 }
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 1013 of file FieldCore.cpp.

1013  {
1015  for (auto &it : fIelds.get<FieldName_mi_tag>()) {
1016  if (it->getSpace() == NOFIELD)
1017  continue; // FIXME: should be treated properly, not test is just
1018  // skipped for this NOFIELD space
1019  EntityHandle meshset = it->getMeshset();
1020  int num_entities;
1021  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
1022  if (entsFields.get<FieldName_mi_tag>().count(it->getName()) >
1023  (unsigned int)num_entities) {
1024  SETERRQ1(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
1025  "not equal number of entities in meshset and field "
1026  "multiindex < %s >",
1027  it->getName().c_str());
1028  }
1029  }
1031 }
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 982 of file FECore.cpp.

983  {
985  FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type::iterator it;
986  it = finiteElements.get<FiniteElement_name_mi_tag>().find(name);
987  if (it == finiteElements.get<FiniteElement_name_mi_tag>().end()) {
988  SETERRQ1(cOmm, 1, "finite element not found < %s >", name.c_str());
989  }
990  EntityHandle meshset = (*it)->getMeshset();
991 
992  int num_entities;
993  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
994 
995  if (entsFiniteElements.get<FiniteElement_name_mi_tag>().count(
996  (*it)->getName().c_str()) != (unsigned int)num_entities) {
997  SETERRQ1(cOmm, 1,
998  "not equal number of entities in meshset and finite elements "
999  "multiindex < %s >",
1000  (*it)->getName().c_str());
1001  }
1003 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
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 1005 of file FECore.cpp.

1005  {
1007  FiniteElement_multiIndex::index<FiniteElement_name_mi_tag>::type::iterator it;
1008  it = finiteElements.get<FiniteElement_name_mi_tag>().begin();
1009  for (; it != finiteElements.get<FiniteElement_name_mi_tag>().end(); it++) {
1010  EntityHandle meshset = (*it)->getMeshset();
1011 
1012  int num_entities;
1013  CHKERR get_moab().get_number_entities_by_handle(meshset, num_entities);
1014 
1015  if (entsFiniteElements.get<FiniteElement_name_mi_tag>().count(
1016  (*it)->getName().c_str()) != (unsigned int)num_entities) {
1017  SETERRQ1(cOmm, 1,
1018  "not equal number of entities in meshset and finite elements "
1019  "multiindex < %s >",
1020  (*it)->getName().c_str());
1021  }
1022  }
1024 }
MPI_Comm cOmm
MoFEM communicator.
Definition: Core.hpp:860
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 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
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 CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:901
#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:901

◆ 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:901
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
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 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

◆ 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:901

◆ 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:901
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:901
#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:901

◆ 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:901

◆ 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:901

◆ 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 }
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_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
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:901
#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 }
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_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
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:901
#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 }
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:476
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
MoFEMErrorCode clear_dofs_fields(const Range &ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:61
#define CHKERR
Inline error check.
Definition: definitions.h:595
MoFEMErrorCode clear_ents_fields(const Range &ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:115
int verbose
Verbosity level.
Definition: Core.hpp:901
#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
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 CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:901
#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
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 CHKERR
Inline error check.
Definition: definitions.h:595
int verbose
Verbosity level.
Definition: Core.hpp:901
#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
int verbose
Verbosity level.
Definition: Core.hpp:901
MoFEMErrorCode clear_finite_elements(const Range &ents, int verb=DEFAULT_VERBOSITY)
Definition: DeleteCore.cpp:293
#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:901
#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.

241  {
243  if (verb == -1)
244  verb = verbose;
245  typedef Problem_multiIndex::index<Problem_mi_tag>::type ProblemsByName;
246  ProblemsByName &prob_by_name = pRoblems.get<Problem_mi_tag>();
247  ProblemsByName::iterator p_miit = prob_by_name.find(problem_name);
248  if (p_miit == prob_by_name.end()) {
249  SETERRQ1(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
250  "problem < %s > not found, (top tip: check spelling)",
251  problem_name.c_str());
252  }
253  // zero rows
254  bool success = prob_by_name.modify(p_miit, ProblemZeroNbRowsChange());
255  if (!success)
256  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
257  "modification unsuccessful");
258  // zero cols
259  success = prob_by_name.modify(p_miit, ProblemZeroNbColsChange());
260  if (!success)
261  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
262  "modification unsuccessful");
263  // clear finite elements
264  success =
265  prob_by_name.modify(p_miit, ProblemClearNumeredFiniteElementsChange());
266  if (!success)
267  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
268  "modification unsuccessful");
269  // clear data structures
270  success = prob_by_name.modify(p_miit, ProblemClearSubProblemData());
271  if (!success)
272  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
273  "modification unsuccessful");
274  success = prob_by_name.modify(p_miit, ProblemClearComposedProblemData());
275  if (!success)
276  SETERRQ(PETSC_COMM_SELF, MOFEM_OPERATION_UNSUCCESSFUL,
277  "modification unsuccessful");
278  if (p_miit->getRowDofsSequence())
279  p_miit->getRowDofsSequence()->clear();
280  if (p_miit->getColDofsSequence())
281  p_miit->getColDofsSequence()->clear();
282  if (p_miit->getSubData())
283  p_miit->getSubData().reset();
284  if (p_miit->getComposedProblemsData())
285  p_miit->getComposedProblemsData().reset();
287 }