MoFEM::PrismInterface Struct Reference

Create interface from given surface and insert flat prisms in-between. More...

#include <src/interfaces/PrismInterface.hpp>

Inheritance diagram for MoFEM::PrismInterface:

Collaboration diagram for MoFEM::PrismInterface:

Public Member Functions
MoFEMErrorCode	query_interface (const MOFEMuuid &uuid, UnknownInterface **iface) const
	PrismInterface (const MoFEM::Core &core)
	~PrismInterface ()
	destructor More...
MoFEMErrorCode	getSides (const int msId, const CubitBCType cubit_bc_type, const BitRefLevel mesh_bit_level, const bool recursive, int verb=QUIET)
	Store tetrahedra from each side of the interface separately in two child meshsets of the parent meshset. More...
MoFEMErrorCode	getSides (const EntityHandle sideset, const BitRefLevel mesh_bit_level, const bool recursive, int verb=QUIET)
	Store tetrahedra from each side of the interface in two child meshsets of the parent meshset. More...
MoFEMErrorCode	findFacesWithThreeNodesOnInternalSurfaceSkin (const EntityHandle sideset, const BitRefLevel mesh_bit_level, const bool recursive, Range &faces_with_three_nodes_on_front, int verb=QUIET)
	Find triangles which have three nodes on internal surface skin. More...
MoFEMErrorCode	splitSides (const EntityHandle meshset, const BitRefLevel &bit, const int msId, const CubitBCType cubit_bc_type, const bool add_interface_entities, const bool recursive=false, int verb=QUIET)
	Split nodes and other entities of tetrahedra on both sides of the interface and insert flat prisms in-between. More...
MoFEMErrorCode	splitSides (const EntityHandle meshset, const BitRefLevel &bit, const EntityHandle sideset, const bool add_interface_entities, const bool recursive=false, int verb=QUIET)
	Split nodes and other entities of tetrahedra on both sides of the interface and insert flat prisms in-between. More...
MoFEMErrorCode	splitSides (const EntityHandle meshset, const BitRefLevel &bit, const BitRefLevel &inhered_from_bit_level, const BitRefLevel &inhered_from_bit_level_mask, const EntityHandle sideset, const bool add_interface_entities, const bool recursive=false, int verb=QUIET)
	Split nodes and other entities of tetrahedra on both sides of the interface and insert flat prisms in-between. More...
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 ()=default
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

Public Attributes
MoFEM::Core &	cOre

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

Create interface from given surface and insert flat prisms in-between.

Examples

forces_and_sources_testing_flat_prism_element.cpp, mesh_insert_interface_atom.cpp, and split_sideset.cpp.

Definition at line 36 of file PrismInterface.hpp.

Constructor & Destructor Documentation

PrismInterface()

MoFEM::PrismInterface::PrismInterface

(

const MoFEM::Core &

core

)

Definition at line 36 of file PrismInterface.cpp.

    : cOre(const_cast<Core &>(core)) {}

~PrismInterface()

MoFEM::PrismInterface::~PrismInterface

(

)

destructor

Definition at line 45 of file PrismInterface.hpp.

{}

Member Function Documentation

findFacesWithThreeNodesOnInternalSurfaceSkin()

MoFEMErrorCode MoFEM::PrismInterface::findFacesWithThreeNodesOnInternalSurfaceSkin	(	const EntityHandle	sideset,
		const BitRefLevel	mesh_bit_level,
		const bool	recursive,
		Range &	faces_with_three_nodes_on_front,
		int	verb = QUIET
	)

Find triangles which have three nodes on internal surface skin.

Internal surface skin is a set of all edges on the boundary of a given surface inside the body. This set of edges is also called the surface front. If a triangle has three nodes on the surface front, none of these nodes can be split. Therefore, such a triangle cannot be split and should be removed from the surface.

Parameters

sideset	meshset with surface
mesh_bit_level	bit ref level of the volume mesh
recursive	if true search in sub-meshsets
faces_with_three_nodes_on_front	returned faces
verb	verbosity level

Returns

error code

Definition at line 397 of file PrismInterface.cpp.

                                                                            {
  Interface &m_field = cOre;
  moab::Interface &moab = m_field.get_moab();
  MoFEMFunctionBegin;

  Range mesh_level_ents3d;
  Range mesh_level_edges, mesh_level_tris;
  if (mesh_bit_level.any()) {
    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBTET, mesh_level_ents3d);

    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBTRI, mesh_level_tris);

    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBEDGE, mesh_level_edges);
  }

  Skinner skin(&moab);
  // get interface triangles from side set
  Range triangles;
  CHKERR moab.get_entities_by_type(sideset, MBTRI, triangles, recursive);

  if (mesh_bit_level.any()) {
    triangles = intersect(triangles, mesh_level_tris);
  }
  if (verb >= VERBOSE) {
    PetscPrintf(m_field.get_comm(), "Nb. of triangles in set %u\n",
                triangles.size());
  }
  // get nodes, edges and 3d ents (i.e. tets and prisms)
  Range nodes; // nodes from triangles
  CHKERR moab.get_connectivity(triangles, nodes, true);

  Range ents3d; // 3d ents from nodes
  CHKERR moab.get_adjacencies(nodes, 3, false, ents3d, moab::Interface::UNION);

  if (mesh_bit_level.any()) {
    ents3d = intersect(ents3d, mesh_level_ents3d);
  }
  // take skin faces
  Range skin_faces; // skin faces from 3d ents
  CHKERR skin.find_skin(0, ents3d.subset_by_type(MBTET), false, skin_faces);

  // take skin edges (boundary of surface if there is any)
  Range skin_edges_boundary; // skin edges from triangles
  CHKERR skin.find_skin(0, triangles, false, skin_edges_boundary);

  if (verb >= VERY_VERBOSE) {
    PetscPrintf(m_field.get_comm(), "skin_edges_boundary %u\n",
                skin_edges_boundary.size());
  }
  // take all edges on skin faces (i.e. skin surface)
  Range skin_faces_edges; // edges from skin faces of 3d ents
  CHKERR moab.get_adjacencies(skin_faces, 1, false, skin_faces_edges,
                              moab::Interface::UNION);

  if (mesh_bit_level.any()) {
    skin_faces_edges = intersect(skin_faces_edges, mesh_level_edges);
  }
  if (verb >= VERY_VERBOSE) {
    PetscPrintf(m_field.get_comm(), "skin_faces_edges %u\n",
                skin_faces_edges.size());
  }
  // note: that skin faces edges do not contain internal boundary
  // note: that prisms are not included in ents3d, so if ents3d have border with
  // other inteface is like external boundary skin edges boundary are internal
  // edge <- skin_faces_edges contains edges which are on the body boundary <-
  // that is the trick
  skin_edges_boundary =
      subtract(skin_edges_boundary,
               skin_faces_edges); // from skin edges subtract edges from skin
                                  // faces of 3d ents (only internal edges)

  if (verb >= VERY_VERBOSE) {
    EntityHandle out_meshset;
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, out_meshset);
    CHKERR moab.add_entities(out_meshset, triangles);
    CHKERR moab.write_file("triangles.vtk", "VTK", "", &out_meshset, 1);
    CHKERR moab.delete_entities(&out_meshset, 1);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, out_meshset);
    CHKERR moab.add_entities(out_meshset, ents3d);
    CHKERR moab.write_file("ents3d.vtk", "VTK", "", &out_meshset, 1);
    CHKERR moab.delete_entities(&out_meshset, 1);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, out_meshset);
    CHKERR moab.add_entities(out_meshset, skin_edges_boundary);
    CHKERR moab.write_file("skin_edges_boundary.vtk", "VTK", "", &out_meshset,
                           1);
    CHKERR moab.delete_entities(&out_meshset, 1);
  }
  if (verb >= VERY_VERBOSE) {
    PetscPrintf(m_field.get_comm(), "subtract skin_edges_boundary %u\n",
                skin_edges_boundary.size());
  }

  // Get nodes on boundary edge
  Range skin_nodes_boundary;
  CHKERR moab.get_connectivity(skin_edges_boundary, skin_nodes_boundary, true);

  // Remove node which are boundary with other existing interface
  Range prisms_nodes;
  CHKERR
  moab.get_connectivity(ents3d.subset_by_type(MBPRISM), prisms_nodes, true);

  skin_nodes_boundary = subtract(skin_nodes_boundary, prisms_nodes);
  if (verb >= VERY_VERBOSE) {
    PetscPrintf(m_field.get_comm(), "subtract skin_nodes_boundary %u\n",
                skin_nodes_boundary.size());
  }
  // use nodes on body boundary and interface (without internal boundary) to
  // find adjacent tets
  Range nodes_without_front = subtract(
      nodes, skin_nodes_boundary); // nodes_without_front adjacent to all split
                                   // face edges except those on internal edge
  if (verb >= VERY_VERBOSE) {
    PetscPrintf(m_field.get_comm(),
                "adj. node if ents3d but not on the internal edge %u\n",
                nodes_without_front.size());
  }

  Range skin_nodes_boundary_tris;
  CHKERR moab.get_adjacencies(skin_nodes_boundary, 2, false,
                              skin_nodes_boundary_tris, moab::Interface::UNION);
  Range skin_nodes_boundary_tris_nodes;
  CHKERR moab.get_connectivity(skin_nodes_boundary_tris,
                               skin_nodes_boundary_tris_nodes, true);

  skin_nodes_boundary_tris_nodes =
      subtract(skin_nodes_boundary_tris_nodes, skin_nodes_boundary);
  Range skin_nodes_boundary_tris_nodes_tris;
  CHKERR moab.get_adjacencies(skin_nodes_boundary_tris_nodes, 2, false,
                              skin_nodes_boundary_tris_nodes_tris,
                              moab::Interface::UNION);

  // Triangle which has tree nodes on front boundary
  skin_nodes_boundary_tris =
      intersect(triangles, subtract(skin_nodes_boundary_tris,
                                    skin_nodes_boundary_tris_nodes_tris));
  faces_with_three_nodes_on_front.swap(skin_nodes_boundary_tris);

  MoFEMFunctionReturn(0);
}

getSides() [1/2]

MoFEMErrorCode MoFEM::PrismInterface::getSides	(	const int	msId,
		const CubitBCType	cubit_bc_type,
		const BitRefLevel	mesh_bit_level,
		const bool	recursive,
		int	verb = QUIET
	)

Store tetrahedra from each side of the interface separately in two child meshsets of the parent meshset.

Additional third child meshset contains nodes which can be split and skin edges

Parameters

msId	Id of meshset
cubit_bc_type	type of meshset (NODESET, SIDESET or BLOCKSET and more)
mesh_bit_level	interface is added on this bit level
recursive	if true parent meshset is searched recursively
verb	verbosity level

Note

if bit_level == BitRefLevel.set() then interface will be added on all bit levels

Examples

forces_and_sources_testing_flat_prism_element.cpp, mesh_insert_interface_atom.cpp, and split_sideset.cpp.

Definition at line 39 of file PrismInterface.cpp.

                                                                        {

  Interface &m_field = cOre;
  MeshsetsManager *meshsets_manager_ptr;
  MoFEMFunctionBegin;
  CHKERR m_field.getInterface(meshsets_manager_ptr);
  CubitMeshSet_multiIndex::index<
      Composite_Cubit_msId_And_MeshSetType_mi_tag>::type::iterator miit =
      meshsets_manager_ptr->getMeshsetsMultindex()
          .get<Composite_Cubit_msId_And_MeshSetType_mi_tag>()
          .find(boost::make_tuple(msId, cubit_bc_type.to_ulong()));
  if (miit != meshsets_manager_ptr->getMeshsetsMultindex()
                  .get<Composite_Cubit_msId_And_MeshSetType_mi_tag>()
                  .end()) {
    CHKERR getSides(miit->meshset, mesh_bit_level, recursive, verb);
  } else {
    SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_FOUND, "msId is not there");
  }
  MoFEMFunctionReturn(0);
}

getSides() [2/2]

MoFEMErrorCode MoFEM::PrismInterface::getSides	(	const EntityHandle	sideset,
		const BitRefLevel	mesh_bit_level,
		const bool	recursive,
		int	verb = QUIET
	)

Store tetrahedra from each side of the interface in two child meshsets of the parent meshset.

Additional third child meshset contains nodes which can be split and skin edges

Parameters

sideset	parent meshset with the surface
mesh_bit_level	interface is added on this bit level
recursive	if true parent meshset is searched recursively
verb	verbosity level

Note

if bit_level == BitRefLevel.set() then interface will be added on all bit levels

1. Get tets adjacent to nodes of the interface meshset.
2. Take skin faces from these tets and get edges from that skin.
3. Take skin from triangles of the interface.
4. Subtract edges of skin faces from skin of triangles in order to get edges in the volume of the body, and not on the interface boundary.
5. Iterate between all triangles of the interface and find adjacent tets on each side of the interface

Definition at line 63 of file PrismInterface.cpp.

                                                                        {
  Interface &m_field = cOre;
  moab::Interface &moab = m_field.get_moab();
  MoFEMFunctionBegin;
  Range mesh_level_ents3d, mesh_level_ents3d_tris;
  Range mesh_level_tris;
  Range mesh_level_edges;
  Range mesh_level_nodes;
  if (mesh_bit_level.any()) {
    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBTET, mesh_level_ents3d);
    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBTRI, mesh_level_tris);
    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBEDGE, mesh_level_edges);
    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBVERTEX, mesh_level_nodes);
    CHKERR moab.get_adjacencies(mesh_level_ents3d, 2, false,
                                mesh_level_ents3d_tris, moab::Interface::UNION);
  }
  Range mesh_level_prisms;
  if (mesh_bit_level.any()) {
    CHKERR m_field.getInterface<BitRefManager>()->getEntitiesByTypeAndRefLevel(
        mesh_bit_level, BitRefLevel().set(), MBPRISM, mesh_level_prisms);
    mesh_level_ents3d.merge(mesh_level_prisms);
  }
  Skinner skin(&moab);
  // get interface triangles from side set
  Range triangles;
  CHKERR moab.get_entities_by_type(sideset, MBTRI, triangles, recursive);
  if (mesh_bit_level.any()) {
    triangles = intersect(triangles, mesh_level_ents3d_tris);
  }
  if (verb >= VERBOSE) {
    PetscPrintf(m_field.get_comm(), "Nb. of triangles in set %u\n",
                triangles.size());
  }
  // get nodes, edges and 3d ents (i.e. tets and prisms)
  Range nodes; // nodes from triangles
  CHKERR moab.get_connectivity(triangles, nodes, true);
  Range ents3d, ents3d_with_prisms; // 3d ents form nodes
  CHKERR moab.get_adjacencies(nodes, 3, false, ents3d_with_prisms,
                              moab::Interface::UNION);
  if (mesh_bit_level.any()) {
    ents3d_with_prisms = intersect(ents3d_with_prisms, mesh_level_ents3d);
  }
  ents3d = ents3d_with_prisms.subset_by_type(
      MBTET); // take only tets, add prism later
  // take skin faces
  Range skin_faces; // skin faces from 3d ents
  CHKERR skin.find_skin(0, ents3d, false, skin_faces);
  // take skin edges (boundary of surface if there is any)
  Range skin_edges_boundary; // skin edges from triangles
  CHKERR skin.find_skin(0, triangles, false, skin_edges_boundary);
  if (verb >= VERY_VERBOSE)
    PetscPrintf(m_field.get_comm(), "skin_edges_boundary %u\n",
                skin_edges_boundary.size());
  // take all edges on skin faces (i.e. skin surface)
  Range skin_faces_edges; // edges from skin faces of 3d ents
  CHKERR moab.get_adjacencies(skin_faces, 1, false, skin_faces_edges,
                              moab::Interface::UNION);
  if (mesh_bit_level.any()) {
    skin_faces_edges = intersect(skin_faces_edges, mesh_level_edges);
  }
  if (verb >= VERY_VERBOSE)
    PetscPrintf(m_field.get_comm(), "skin_faces_edges %u\n",
                skin_faces_edges.size());
  // note: that skin faces edges do not contain internal boundary
  // note: that prisms are not included in ents3d, so if ents3d have border with
  // other inteface is like external boundary skin edges boundary are internal
  // edge <- skin_faces_edges contains edges which are on the body boundary <-
  // that is the trick
  skin_edges_boundary =
      subtract(skin_edges_boundary,
               skin_faces_edges); // from skin edges subtract edges from skin
                                  // faces of 3d ents (only internal edges)
  if (verb >= NOISY) {
    EntityHandle out_meshset;
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, out_meshset);
    CHKERR moab.add_entities(out_meshset, triangles);
    CHKERR moab.write_file("triangles.vtk", "VTK", "", &out_meshset, 1);
    CHKERR moab.delete_entities(&out_meshset, 1);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, out_meshset);
    CHKERR moab.add_entities(out_meshset, ents3d);
    CHKERR moab.write_file("ents3d.vtk", "VTK", "", &out_meshset, 1);
    CHKERR moab.delete_entities(&out_meshset, 1);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, out_meshset);
    CHKERR moab.add_entities(out_meshset, skin_edges_boundary);
    CHKERR moab.write_file("skin_edges_boundary.vtk", "VTK", "", &out_meshset,
                           1);
    CHKERR moab.delete_entities(&out_meshset, 1);
  }
  if (verb >= VERY_VERBOSE)
    PetscPrintf(m_field.get_comm(), "subtract skin_edges_boundary %u\n",
                skin_edges_boundary.size());
  // Get nodes on boundary edge
  Range skin_nodes_boundary;
  CHKERR moab.get_connectivity(skin_edges_boundary, skin_nodes_boundary, true);
  // Remove node which are boundary with other existing interface
  Range prisms_nodes;
  CHKERR moab.get_connectivity(ents3d_with_prisms.subset_by_type(MBPRISM),
                               prisms_nodes, true);
  skin_nodes_boundary = subtract(skin_nodes_boundary, prisms_nodes);
  if (verb >= VERY_VERBOSE)
    PetscPrintf(m_field.get_comm(), "subtract skin_nodes_boundary %u\n",
                skin_nodes_boundary.size());
  // use nodes on body boundary and interface (without internal boundary) to
  // find adjacent tets
  Range nodes_without_front = subtract(
      nodes, skin_nodes_boundary); // nodes_without_front adjacent to all split
                                   // face edges except those on internal edge
  if (verb >= VERY_VERBOSE)
    PetscPrintf(m_field.get_comm(),
                "adj. node if ents3d but not on the internal edge %u\n",
                nodes_without_front.size());
  // ents3 that are adjacent to front nodes on split faces but not those which
  // are on the front nodes on internal edge
  ents3d.clear();
  ents3d_with_prisms.clear();
  CHKERR moab.get_adjacencies(nodes_without_front, 3, false, ents3d_with_prisms,
                              moab::Interface::UNION);

  // Add tets adjacent to front and triangle which has all nodes on crack front
  struct FindTrianglesOnFrontAndAdjacentTet {
    static MoFEMErrorCode
    fUN(moab::Interface &moab, const Range &triangles,
        const Range &skin_nodes_boundary, ///< nodes on front
        const Range &skin_edges_boundary, ///< edges on front
        Range &ents3d_with_prisms) {
      MoFEMFunctionBegin;
      // get all triangles adjacent to front
      Range skin_nodes_boundary_tris;
      CHKERR moab.get_adjacencies(skin_nodes_boundary, 2, false,
                                  skin_nodes_boundary_tris,
                                  moab::Interface::UNION);
      // get nodes of triangles adjacent to front nodes
      Range skin_nodes_boundary_tris_nodes;
      CHKERR moab.get_connectivity(skin_nodes_boundary_tris,
                                   skin_nodes_boundary_tris_nodes, true);
      // get hanging nodes, i.e. nodes which are not on the front but adjacent
      // to triangles adjacent to crack front
      skin_nodes_boundary_tris_nodes =
          subtract(skin_nodes_boundary_tris_nodes, skin_nodes_boundary);
      // get triangles adjacent to hanging nodes
      Range skin_nodes_boundary_tris_nodes_tris;
      CHKERR moab.get_adjacencies(skin_nodes_boundary_tris_nodes, 2, false,
                                  skin_nodes_boundary_tris_nodes_tris,
                                  moab::Interface::UNION);
      // triangles which have tree nodes on front boundary
      skin_nodes_boundary_tris =
          intersect(triangles, subtract(skin_nodes_boundary_tris,
                                        skin_nodes_boundary_tris_nodes_tris));
      if (!skin_nodes_boundary_tris.empty()) {
        // Get internal edges of triangle which has three nodes on boundary
        Range skin_nodes_boundary_tris_edges;
        CHKERR moab.get_adjacencies(skin_nodes_boundary_tris, 1, false,
                                    skin_nodes_boundary_tris_edges,
                                    moab::Interface::UNION);
        skin_nodes_boundary_tris_edges =
            subtract(skin_nodes_boundary_tris_edges, skin_edges_boundary);
        // Get 3d elements adjacent to internal edge which has two nodes on
        // boundary
        CHKERR moab.get_adjacencies(skin_nodes_boundary_tris_edges, 3, false,
                                    ents3d_with_prisms, moab::Interface::UNION);
      }
      MoFEMFunctionReturn(0);
    }
  };
  CHKERR FindTrianglesOnFrontAndAdjacentTet::fUN(
      moab, triangles, skin_nodes_boundary, skin_edges_boundary,
      ents3d_with_prisms);

  // prism and tets on both side of interface
  if (mesh_bit_level.any()) {
    ents3d_with_prisms = intersect(ents3d_with_prisms, mesh_level_ents3d);
  }
  ents3d = ents3d_with_prisms.subset_by_type(MBTET);
  if (verb >= VERY_VERBOSE)
    PetscPrintf(m_field.get_comm(), "adj. ents3d to front nodes %u\n",
                ents3d.size());

  Range side_ents3d;
  unsigned int nb_side_ents3d = side_ents3d.size();
  side_ents3d.insert(*ents3d.begin());
  Range side_ents3d_tris_on_surface;

  // get all tets adjacent to crack surface, but only on one side of it
  do {

    do {
      Range adj_tris, adj_ents3d;
      nb_side_ents3d = side_ents3d.size();
      if (verb >= VERBOSE)
        PetscPrintf(m_field.get_comm(), "nb_side_ents3d %u\n", nb_side_ents3d);
      // get faces
      CHKERR moab.get_adjacencies(side_ents3d.subset_by_type(MBTET), 2, false,
                                  adj_tris, moab::Interface::UNION);
      if (mesh_bit_level.any()) {
        adj_tris = intersect(adj_tris, mesh_level_tris);
      }
      // subtrace from faces interface
      adj_tris = subtract(adj_tris, triangles);
      if (verb >= VERBOSE)
        PetscPrintf(m_field.get_comm(), "adj_tris %u\n", adj_tris.size());
      // get tets adjacent to faces
      CHKERR moab.get_adjacencies(adj_tris, 3, true, adj_ents3d,
                                  moab::Interface::UNION);
      // intersect tets with tets adjacent to inetface
      adj_ents3d = intersect(adj_ents3d, ents3d_with_prisms);
      if (verb >= VERBOSE)
        PetscPrintf(m_field.get_comm(), "adj_ents3d %u\n", adj_ents3d.size());
      // add tets to side
      side_ents3d.insert(adj_ents3d.begin(), adj_ents3d.end());
      if (verb >= VERY_NOISY) {
        EntityHandle out_meshset;
        CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER,
                                   out_meshset);
        CHKERR moab.add_entities(out_meshset, side_ents3d);
        std::string file = "side_ents3d_" +
                           boost::lexical_cast<std::string>(nb_side_ents3d) +
                           ".vtk";
        CHKERR moab.write_file(file.c_str(), "VTK", "", &out_meshset, 1);
        CHKERR moab.delete_entities(&out_meshset, 1);
      }
    } while (nb_side_ents3d != side_ents3d.size());

    Range side_ents3d_tris;
    CHKERR moab.get_adjacencies(side_ents3d, 2, false, side_ents3d_tris,
                                moab::Interface::UNION);
    side_ents3d_tris_on_surface = intersect(side_ents3d_tris, triangles);

    if (verb >= VERY_NOISY) {
      Range left_triangles = subtract(triangles, side_ents3d_tris_on_surface);
      if (!left_triangles.empty()) {
        EntityHandle out_meshset;
        CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER,
                                   out_meshset);
        CHKERR moab.add_entities(out_meshset, left_triangles);
        std::string file = "left_triangles_" +
                           boost::lexical_cast<std::string>(nb_side_ents3d) +
                           ".vtk";
        CHKERR moab.write_file(file.c_str(), "VTK", "", &out_meshset, 1);
        CHKERR moab.delete_entities(&out_meshset, 1);
      }
    }

    // This is a case when separate sub-domains are split, so we need
    // additional tetrahedron for seed process
    if (side_ents3d_tris_on_surface.size() != triangles.size()) {
      Range left_triangles = subtract(triangles, side_ents3d_tris_on_surface);
      Range tets;
      CHKERR moab.get_adjacencies(&*left_triangles.begin(), 1, 3, false, tets);

      tets = intersect(tets, ents3d_with_prisms);
      if (tets.empty()) {
        Range left_triangles_nodes;
        CHKERR moab.get_connectivity(&*left_triangles.begin(), 1,
                                     left_triangles_nodes, true);
        EntityHandle meshset;
        CHKERR moab.create_meshset(MESHSET_SET, meshset);
        CHKERR moab.add_entities(meshset, left_triangles);
        CHKERR moab.write_file("error.vtk", "VTK", "", &meshset, 1);
        CHKERR moab.delete_entities(&meshset, 1);
        SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                "Not all faces on surface going to be split, see error.vtk for "
                "problematic triangle. "
                "It could be a case where triangle on front (part boundary of "
                "surface in interior) "
                "has three nodes front.");
      }
      side_ents3d.insert(*tets.begin());
    }

  } while (side_ents3d_tris_on_surface.size() != triangles.size());

  if (ents3d_with_prisms.size() == side_ents3d.size()) {
    SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
            "All tets on one side, no-interface");
  }
  // other side ents
  Range other_side = subtract(ents3d_with_prisms, side_ents3d);
  // side nodes
  Range side_nodes;
  CHKERR moab.get_connectivity(side_ents3d.subset_by_type(MBTET), side_nodes,
                               true);
  // nodes on crack surface without front
  nodes_without_front = intersect(nodes_without_front, side_nodes);
  Range side_edges;
  CHKERR moab.get_adjacencies(side_ents3d.subset_by_type(MBTET), 1, false,
                              side_edges, moab::Interface::UNION);
  skin_edges_boundary = intersect(skin_edges_boundary, side_edges);
  // make child meshsets
  std::vector<EntityHandle> children;
  CHKERR moab.get_child_meshsets(sideset, children);
  if (children.empty()) {
    children.resize(3);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, children[0]);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, children[1]);
    CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER, children[2]);
    CHKERR moab.add_child_meshset(sideset, children[0]);
    CHKERR moab.add_child_meshset(sideset, children[1]);
    CHKERR moab.add_child_meshset(sideset, children[2]);
  } else {
    if (children.size() != 3) {
      SETERRQ(PETSC_COMM_SELF, 1,
              "this meshset should have 3 children meshsets");
    }
    children.resize(3);
    CHKERR moab.clear_meshset(&children[0], 3);
  }
  EntityHandle &child_side = children[0];
  EntityHandle &child_other_side = children[1];
  EntityHandle &child_nodes_and_skin_edges = children[2];
  CHKERR moab.add_entities(child_side, side_ents3d);
  CHKERR moab.add_entities(child_other_side, other_side);
  CHKERR moab.add_entities(child_nodes_and_skin_edges, nodes_without_front);
  CHKERR moab.add_entities(child_nodes_and_skin_edges, skin_edges_boundary);
  if (verb >= VERBOSE) {
    PetscPrintf(m_field.get_comm(), "Nb. of side ents3d in set %u\n",
                side_ents3d.size());
    PetscPrintf(m_field.get_comm(), "Nb. of other side ents3d in set %u\n",
                other_side.size());
    PetscPrintf(m_field.get_comm(), "Nb. of boundary edges %u\n",
                skin_edges_boundary.size());
  }
  if (verb >= NOISY) {
    CHKERR moab.write_file("side.vtk", "VTK", "", &children[0], 1);
    CHKERR moab.write_file("other_side.vtk", "VTK", "", &children[1], 1);
  }
  MoFEMFunctionReturn(0);
}

query_interface()

MoFEMErrorCode MoFEM::PrismInterface::query_interface ( const MOFEMuuid &  uuid, UnknownInterface **  iface  ) const

virtual

Implements MoFEM::UnknownInterface.

Definition at line 24 of file PrismInterface.cpp.

                                                                               {
  MoFEMFunctionBeginHot;
  *iface = NULL;
  if (uuid == IDD_MOFEMPrismInterface) {
    *iface = const_cast<PrismInterface *>(this);
    MoFEMFunctionReturnHot(0);
  }
  SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY, "unknown interface");
  MoFEMFunctionReturnHot(0);
}

splitSides() [1/3]

MoFEMErrorCode MoFEM::PrismInterface::splitSides	(	const EntityHandle	meshset,
		const BitRefLevel &	bit,
		const int	msId,
		const CubitBCType	cubit_bc_type,
		const bool	add_interface_entities,
		const bool	recursive = false,
		int	verb = QUIET
	)

Split nodes and other entities of tetrahedra on both sides of the interface and insert flat prisms in-between.

Parameters

meshset	volume meshset containing 3D entities around the interface
bit	bit ref level on which new entities will be stored
msId	meshset ID of the surface
cubit_bc_type	type of meshset (NODESET, SIDESET or BLOCKSET and more)
add_interface_entities	if true add prism elements at interface
recursive	if true parent meshset is searched recursively
verb	verbosity level

Note

Parent meshset must have three child meshsets: two with tetrahedra from each side of the interface, third containing nodes which can be split and skin edges

Examples

forces_and_sources_testing_flat_prism_element.cpp, mesh_insert_interface_atom.cpp, and split_sideset.cpp.

Definition at line 542 of file PrismInterface.cpp.

                                                                          {

  Interface &m_field = cOre;
  MeshsetsManager *meshsets_manager_ptr;
  MoFEMFunctionBegin;
  CHKERR m_field.getInterface(meshsets_manager_ptr);
  CubitMeshSet_multiIndex::index<
      Composite_Cubit_msId_And_MeshSetType_mi_tag>::type::iterator miit =
      meshsets_manager_ptr->getMeshsetsMultindex()
          .get<Composite_Cubit_msId_And_MeshSetType_mi_tag>()
          .find(boost::make_tuple(msId, cubit_bc_type.to_ulong()));
  if (miit != meshsets_manager_ptr->getMeshsetsMultindex()
                  .get<Composite_Cubit_msId_And_MeshSetType_mi_tag>()
                  .end()) {
    CHKERR splitSides(meshset, bit, miit->meshset, add_interface_entities,
                      recursive, verb);
  } else {
    SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY, "msId is not there");
  }
  MoFEMFunctionReturn(0);
}

splitSides() [2/3]

MoFEMErrorCode MoFEM::PrismInterface::splitSides	(	const EntityHandle	meshset,
		const BitRefLevel &	bit,
		const EntityHandle	sideset,
		const bool	add_interface_entities,
		const bool	recursive = false,
		int	verb = QUIET
	)

Split nodes and other entities of tetrahedra on both sides of the interface and insert flat prisms in-between.

Parameters

meshset	volume meshset containing 3D entities around the interface
bit	bit ref level on which new entities will be stored
sideset	meshset with surface
add_interface_entities	if true add prism elements at interface
recursive	if true parent meshset is searched recursively
verb	verbosity level

Note

Parent meshset must have three child meshsets: two with tetrahedra from each side of the interface, third containing nodes which can be split and skin edges

Definition at line 569 of file PrismInterface.cpp.

                                                                          {

  MoFEMFunctionBegin;
  CHKERR splitSides(meshset, bit, BitRefLevel(), BitRefLevel(), sideset,
                    add_interface_entities, recursive, verb);
  MoFEMFunctionReturn(0);
}

splitSides() [3/3]

MoFEMErrorCode MoFEM::PrismInterface::splitSides	(	const EntityHandle	meshset,
		const BitRefLevel &	bit,
		const BitRefLevel &	inhered_from_bit_level,
		const BitRefLevel &	inhered_from_bit_level_mask,
		const EntityHandle	sideset,
		const bool	add_interface_entities,
		const bool	recursive = false,
		int	verb = QUIET
	)

Split nodes and other entities of tetrahedra on both sides of the interface and insert flat prisms in-between.

Parameters

meshset	volume meshset containing 3D entities around the interface
bit	bit ref level on which new entities will be stored
inhered_from_bit_level	inherit nodes and other entities form this bit level
inhered_from_bit_level_mask	corresponding mask
sideset	meshset with surface
add_interface_entities	if true add prism elements at interface
recursive	if true parent meshset is searched recursively
verb	verbosity level

Note

Parent meshset must have three child meshsets: two with tetrahedra from each side of the interface, third containing nodes which can be split and skin edges

inhered_from_bit_level needs to be specified for some meshsets with interfaces. Some nodes on some refinement levels are dividing edges but not splitting faces. Inheriting those nodes will not split faces.

Definition at line 581 of file PrismInterface.cpp.

                                                                       {

  Interface &m_field = cOre;
  moab::Interface &moab = m_field.get_moab();
  const RefEntity_multiIndex *refined_ents_ptr;
  MoFEMFunctionBegin;

  CHKERR m_field.get_ref_ents(&refined_ents_ptr);

  std::vector<EntityHandle> children;
  // get children meshsets
  CHKERR moab.get_child_meshsets(sideset, children);
  if (children.size() != 3)
    SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
            "should be 3 child meshsets, each of them contains tets on two "
            "sides of interface");

  // 3d ents on "father" side
  Range side_ents3d;
  CHKERR moab.get_entities_by_handle(children[0], side_ents3d, false);
  // 3d ents on "mother" side
  Range other_ents3d;
  CHKERR moab.get_entities_by_handle(children[1], other_ents3d, false);
  // faces of interface
  Range triangles;
  CHKERR moab.get_entities_by_type(sideset, MBTRI, triangles, recursive);
  Range side_ents3d_tris;
  CHKERR moab.get_adjacencies(side_ents3d, 2, true, side_ents3d_tris,
                              moab::Interface::UNION);
  triangles = intersect(triangles, side_ents3d_tris);
  // nodes on interface but not on crack front (those should not be splitted)
  Range nodes;
  CHKERR moab.get_entities_by_type(children[2], MBVERTEX, nodes, false);
  Range meshset_3d_ents, meshset_2d_ents;
  CHKERR moab.get_entities_by_dimension(meshset, 3, meshset_3d_ents, true);
  Range meshset_tets = meshset_3d_ents.subset_by_type(MBTET);
  CHKERR moab.get_adjacencies(meshset_tets, 2, false, meshset_2d_ents,
                              moab::Interface::UNION);
  side_ents3d = intersect(meshset_3d_ents, side_ents3d);
  other_ents3d = intersect(meshset_3d_ents, other_ents3d);
  triangles = intersect(meshset_2d_ents, triangles);
  if (verb >= VERY_VERBOSE) {
    PetscPrintf(m_field.get_comm(), "split sides triangles %u\n",
                triangles.size());
    PetscPrintf(m_field.get_comm(), "split sides side_ents3d %u\n",
                side_ents3d.size());
    PetscPrintf(m_field.get_comm(), "split sides nodes %u\n", nodes.size());
  }

  typedef std::map<EntityHandle, /*node on "mother" side*/
                   EntityHandle  /*node on "father" side*/
                   >
      MapNodes;
  MapNodes map_nodes;

  // Map nodes on sides, set parent node and set bit ref level
  {
    struct CreateSideNodes {
      MoFEM::Core &cOre;
      MoFEM::Interface &m_field;
      std::vector<EntityHandle> splitNodes;
      std::vector<double> splitCoords[3];

      RefEntity_multiIndex_view_by_hashed_parent_entity refParentEntsView;

      CreateSideNodes(MoFEM::Core &core, int split_size = 0)
          : cOre(core), m_field(core) {
        splitNodes.reserve(split_size);
        for (auto dd : {0, 1, 2})
          splitCoords[dd].reserve(split_size);
      }
      MoFEMErrorCode operator()(const double coords[], const EntityHandle n) {
        MoFEMFunctionBegin;
        splitNodes.emplace_back(n);
        for (auto dd : {0, 1, 2})
          splitCoords[dd].emplace_back(coords[dd]);
        MoFEMFunctionReturn(0);
      }

      MoFEMErrorCode operator()(const BitRefLevel &bit, MapNodes &map_nodes) {
        ReadUtilIface *iface;
        MoFEMFunctionBegin;
        int num_nodes = splitNodes.size();
        std::vector<double *> arrays_coord;
        EntityHandle startv;
        CHKERR m_field.get_moab().query_interface(iface);
        CHKERR iface->get_node_coords(3, num_nodes, 0, startv, arrays_coord);
        Range verts(startv, startv + num_nodes - 1);
        for (int dd = 0; dd != 3; ++dd)
          std::copy(splitCoords[dd].begin(), splitCoords[dd].end(),
                    arrays_coord[dd]);
        for (int nn = 0; nn != num_nodes; ++nn)
          map_nodes[splitNodes[nn]] = verts[nn];
        CHKERR m_field.get_moab().tag_set_data(cOre.get_th_RefParentHandle(),
                                               verts, &*splitNodes.begin());
        CHKERR m_field.getInterface<BitRefManager>()->setEntitiesBitRefLevel(
            verts, bit, QUIET);
        MoFEMFunctionReturn(0);
      }
    };
    CreateSideNodes create_side_nodes(cOre, nodes.size());

    RefEntity_multiIndex_view_by_hashed_parent_entity ref_parent_ents_view;
    struct CreateParentEntView {
      MoFEMErrorCode
      operator()(const BitRefLevel &bit, const BitRefLevel &mask,
                 const RefEntity_multiIndex *refined_ents_ptr,
                 RefEntity_multiIndex_view_by_hashed_parent_entity
                     &ref_parent_ents_view) const {
        MoFEMFunctionBegin;
        auto &ref_ents =
            refined_ents_ptr->get<Composite_EntType_and_ParentEntType_mi_tag>();
        // view by parent type (VERTEX)
        auto miit = ref_ents.lower_bound(boost::make_tuple(MBVERTEX, MBVERTEX));
        auto hi_miit =
            ref_ents.upper_bound(boost::make_tuple(MBVERTEX, MBVERTEX));
        for (; miit != hi_miit; miit++) {
          const auto &ent_bit = (*miit)->getBitRefLevel();
          if ((ent_bit & bit).any() && (ent_bit & mask) == ent_bit) {
            auto p_ref_ent_view = ref_parent_ents_view.insert(*miit);
            if (!p_ref_ent_view.second)
              SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
                      "non unique insertion");
          }
        }
        MoFEMFunctionReturn(0);
      }
    };
    if (inhered_from_bit_level.any() && inhered_from_bit_level_mask.any())
      CHKERR CreateParentEntView()(inhered_from_bit_level,
                                   inhered_from_bit_level_mask,
                                   refined_ents_ptr, ref_parent_ents_view);

    // add new nodes on interface and create map
    Range add_bit_nodes;
    for (auto pnit = nodes.pair_begin(); pnit != nodes.pair_end(); ++pnit) {
      auto lo = refined_ents_ptr->lower_bound(pnit->first);
      auto hi = refined_ents_ptr->upper_bound(pnit->second);
      if (std::distance(lo, hi) != (pnit->second - pnit->first + 1))
        SETERRQ(
            PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
            "Can not find some nodes in database that are split on interface");
      Range nodes_in_range;
      insertOrdered(nodes_in_range, RefEntExtractor(), lo, hi);
      std::vector<double> coords_range(nodes_in_range.size() * 3);
      CHKERR moab.get_coords(nodes_in_range, &*coords_range.begin());
      int pos = 0;
      for (; lo != hi; ++lo, pos += 3) {
        const EntityHandle node = (*lo)->getRefEnt();
        EntityHandle child_entity = 0;
        auto child_it = ref_parent_ents_view.find(node);
        if (child_it != ref_parent_ents_view.end())
          child_entity = (*child_it)->getRefEnt();
        if (child_entity == 0) {
          CHKERR create_side_nodes(&coords_range[pos], node);
        } else {
          map_nodes[node] = child_entity;
          add_bit_nodes.insert(child_entity);
        }
      }
    }
    add_bit_nodes.merge(nodes);
    CHKERR m_field.getInterface<BitRefManager>()->addBitRefLevel(add_bit_nodes,
                                                                 bit);
    CHKERR create_side_nodes(bit, map_nodes);
  }

  // crete meshset for new mesh bit level
  EntityHandle meshset_for_bit_level;
  CHKERR moab.create_meshset(MESHSET_SET | MESHSET_TRACK_OWNER,
                             meshset_for_bit_level);
  // subtract those elements which will be refined, i.e. disconnected from other
  // side elements, and connected to new prisms, if they are created
  meshset_3d_ents = subtract(meshset_3d_ents, side_ents3d);
  CHKERR moab.add_entities(meshset_for_bit_level, meshset_3d_ents);

  // create new 3d ents on "father" side
  Range new_3d_ents;
  for (Range::iterator eit3d = side_ents3d.begin(); eit3d != side_ents3d.end();
       eit3d++) {
    auto miit_ref_ent = refined_ents_ptr->find(*eit3d);
    if (miit_ref_ent == refined_ents_ptr->end())
      SETERRQ(m_field.get_comm(), MOFEM_OPERATION_UNSUCCESSFUL,
              "Tetrahedron not in database");

    int num_nodes;
    const EntityHandle *conn;
    CHKERR moab.get_connectivity(*eit3d, conn, num_nodes, true);
    EntityHandle new_conn[num_nodes];
    int nb_new_conn = 0;
    for (int ii = 0; ii < num_nodes; ii++) {
      std::map<EntityHandle, EntityHandle>::iterator mit =
          map_nodes.find(conn[ii]);
      if (mit != map_nodes.end()) {
        new_conn[ii] = mit->second;
        nb_new_conn++;
        if (verb >= VERY_NOISY) {
          PetscPrintf(m_field.get_comm(), "nodes %u -> %d\n", conn[ii],
                      new_conn[ii]);
        }
      } else {
        new_conn[ii] = conn[ii];
      }
    }
    if (nb_new_conn == 0) {
      // Add this tet to bit ref level
      CHKERR moab.add_entities(meshset_for_bit_level, &*eit3d, 1);
      continue;
    }

    // here is created new or prism is on interface
    EntityHandle existing_ent = 0;
    /* check if tet element with new connectivity is in database*/
    auto child_iit =
        refined_ents_ptr->get<Ent_Ent_mi_tag>().lower_bound(*eit3d);
    auto hi_child_iit =
        refined_ents_ptr->get<Ent_Ent_mi_tag>().upper_bound(*eit3d);

    // Check if child entity has the same connectivity
    for (; child_iit != hi_child_iit; child_iit++) {
      const EntityHandle *conn_ref_tet;
      CHKERR moab.get_connectivity(child_iit->get()->getRefEnt(), conn_ref_tet,
                                   num_nodes, true);
      int nn = 0;
      for (; nn < num_nodes; nn++) {
        if (conn_ref_tet[nn] != new_conn[nn]) {
          break;
        }
      }
      if (nn == num_nodes) {
        if (existing_ent != 0)
          SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                  "Should be only one child entity with the same connectivity");
        existing_ent = child_iit->get()->getRefEnt();
      }
    }

    switch (moab.type_from_handle(*eit3d)) {
    case MBTET: {

      RefEntity_multiIndex::iterator child_it;
      EntityHandle tet;
      if (existing_ent == 0) {
        Range new_conn_tet;
        CHKERR moab.get_adjacencies(new_conn, 4, 3, false, new_conn_tet);
        if (new_conn_tet.empty()) {
          CHKERR moab.create_element(MBTET, new_conn, 4, tet);
          CHKERR moab.tag_set_data(cOre.get_th_RefParentHandle(), &tet, 1,
                                   &*eit3d);
        } else {
          // FIXME: That takes firs element form the list. Should throw error
          // if is more than one or handle it properly.
          RefEntity_multiIndex::index<Ent_mi_tag>::type::iterator new_rit =
              refined_ents_ptr->get<Ent_mi_tag>().find(*new_conn_tet.begin());
          if (new_rit == refined_ents_ptr->get<Ent_mi_tag>().end())
            SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                    "Can't find entity in database");
          tet = *new_conn_tet.begin();
        }
      } else {
        tet = existing_ent;
      }

      CHKERR moab.add_entities(meshset_for_bit_level, &tet, 1);
      new_3d_ents.insert(tet);

    } break;
    case MBPRISM: {
      EntityHandle prism;
      if (existing_ent == 0) {
        Range new_conn_prism;
        CHKERR moab.get_adjacencies(new_conn, 6, 3, false, new_conn_prism);
        if (new_conn_prism.empty()) {
          CHKERR moab.create_element(MBPRISM, new_conn, 6, prism);
          CHKERR moab.tag_set_data(cOre.get_th_RefParentHandle(), &prism, 1,
                                   &*eit3d);
        } else {
          SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                  "It is prism with such connectivity, that case has to be "
                  "handled but this is not implemented");
        }
      } else {
        prism = existing_ent;
      }
      CHKERR moab.add_entities(meshset_for_bit_level, &prism, 1);
      new_3d_ents.insert(prism);
    } break;
    default:
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "Not implemented element");
    }
  }

  auto get_adj_ents = [&](const bool create) {
    Range adj;
    // create new entities by adjacencies form new tets
    CHKERR moab.get_adjacencies(new_3d_ents.subset_by_type(MBTET), 2, create,
                                adj, moab::Interface::UNION);
    CHKERR moab.get_adjacencies(new_3d_ents.subset_by_type(MBTET), 1, create,
                                adj, moab::Interface::UNION);
    return adj;
  };

  Range new_ents_existing = get_adj_ents(false);
  Range new_ents = subtract(get_adj_ents(true), new_ents_existing);

  // Tags for setting side
  Tag th_interface_side;
  const int def_side[] = {0};
  CHKERR moab.tag_get_handle("INTERFACE_SIDE", 1, MB_TYPE_INTEGER,
                             th_interface_side, MB_TAG_CREAT | MB_TAG_SPARSE,
                             def_side);

  struct SetParent {
    map<EntityHandle, EntityHandle> parentsToChange;
    MoFEMErrorCode operator()(const EntityHandle ent, const EntityHandle parent,
                              const RefEntity_multiIndex *ref_ents_ptr,
                              MoFEM::Core &cOre) {
      MoFEM::Interface &m_field = cOre;
      MoFEMFunctionBegin;
      auto it = ref_ents_ptr->find(ent);
      if (it != ref_ents_ptr->end()) {
        if (it->get()->getParentEnt() != parent && ent != parent)
          parentsToChange[ent] = parent;
      } else {
        if (ent != parent)
          CHKERR m_field.get_moab().tag_set_data(cOre.get_th_RefParentHandle(),
                                                 &ent, 1, &parent);
      }
      MoFEMFunctionReturn(0);
    }
    MoFEMErrorCode operator()(const RefEntity_multiIndex *ref_ents_ptr) {
      MoFEMFunctionBegin;
      for (auto mit = parentsToChange.begin(); mit != parentsToChange.end();
           ++mit) {
        auto it = ref_ents_ptr->find(mit->first);
        bool success = const_cast<RefEntity_multiIndex *>(ref_ents_ptr)
                           ->modify(it, RefEntity_change_parent(mit->second));
        if (!success)
          SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
                  "Impossible to set parent");
      }
      MoFEMFunctionReturn(0);
    }
  };
  SetParent set_parent;

  // add new edges and triangles to mofem database
  Range ents;
  CHKERR moab.get_adjacencies(triangles, 1, false, ents,
                              moab::Interface::UNION);
  ents.insert(triangles.begin(), triangles.end());
  for (Range::iterator eit = ents.begin(); eit != ents.end(); eit++) {
    int num_nodes;
    const EntityHandle *conn;
    CHKERR moab.get_connectivity(*eit, conn, num_nodes, true);
    int sense = 0; ///< sense of the triangle used to create a prism
    if (moab.type_from_handle(*eit) == MBTRI) {
      Range ents_3d;
      CHKERR moab.get_adjacencies(&*eit, 1, 3, false, ents_3d);
      ents_3d = intersect(ents_3d, side_ents3d);
      switch (ents_3d.size()) {
      case 0:
        SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                "Did not find adjacent tets on one side of the interface, "
                "check its definition and try creating separate sidesets for "
                "each surface");
      case 2:
        SETERRQ(
            m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
            "Found both adjacent tets on one side of the interface, check its "
            "definition and try creating separate sidesets for each surface");
      default:
        break;
      }
      int side, offset;
      CHKERR moab.side_number(ents_3d.front(), *eit, side, sense, offset);
    }
    EntityHandle new_conn[num_nodes];
    int nb_new_conn = 0;
    for (int ii = 0; ii != num_nodes; ++ii) {
      std::map<EntityHandle, EntityHandle>::iterator mit =
          map_nodes.find(conn[ii]);
      if (mit != map_nodes.end()) {
        new_conn[ii] = mit->second;
        nb_new_conn++;
        if (verb >= VERY_NOISY) {
          PetscPrintf(m_field.get_comm(), "nodes %u -> %d\n", conn[ii],
                      new_conn[ii]);
        }
      } else {
        new_conn[ii] = conn[ii];
      }
    }
    if (nb_new_conn == 0)
      continue;
    RefEntity_multiIndex::iterator miit_ref_ent = refined_ents_ptr->find(*eit);
    if (miit_ref_ent == refined_ents_ptr->end())
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "this entity (edge or tri) should be already in database");

    Range new_ent; // contains all entities (edges or triangles) added to mofem
                   // database
    switch (moab.type_from_handle(*eit)) {
    case MBTRI: {
      // get entity based on its connectivity
      CHKERR moab.get_adjacencies(new_conn, 3, 2, false, new_ent);
      if (new_ent.size() != 1)
        SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                "this tri should be in moab database");
      int new_side = 1;
      CHKERR moab.tag_set_data(th_interface_side, &*new_ent.begin(), 1,
                               &new_side);
      if (verb >= VERY_VERBOSE)
        PetscPrintf(m_field.get_comm(), "new_ent %u\n", new_ent.size());
      // add prism element
      if (add_interface_entities) {
        if (inhered_from_bit_level.any()) {
          SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                  "not implemented for inhered_from_bit_level");
        }
        // set prism connectivity
        EntityHandle prism_conn[6] = {conn[0],     conn[1],     conn[2],
                                      new_conn[0], new_conn[1], new_conn[2]};
        if (sense != 1 && sense != -1) {
          SETERRQ(
              m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "Undefined sense of a trinagle on the interface, check its "
              "definition and try creating separate sidesets for each surface");
        }
        if (sense == -1) {
          // swap nodes in triangles for correct prism creation
          std::swap(prism_conn[1], prism_conn[2]);
          std::swap(prism_conn[4], prism_conn[5]);
        }
        EntityHandle prism;
        CHKERR moab.create_element(MBPRISM, prism_conn, 6, prism);
        CHKERR moab.add_entities(meshset_for_bit_level, &prism, 1);
      }
    } break;
    case MBEDGE: {
      CHKERR moab.get_adjacencies(new_conn, 2, 1, false, new_ent);
      if (new_ent.size() != 1) {
        SETERRQ2(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                 "this edge should be in moab database "
                 "new_ent.size() = %u nb_new_conn = %d",
                 new_ent.size(), nb_new_conn);
      }
    } break;
    default:
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "Houston we have a problem !!!");
    }
    if (new_ent.size() != 1) {
      SETERRQ1(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
               "new_ent.size() = %u, size always should be 1", new_ent.size());
    }
    CHKERR set_parent(new_ent[0], *eit, refined_ents_ptr, cOre);
  }

  // all other entities, some ents like triangles and faces on the side of tets
  auto all_others_adj_entities = [&](const bool create) {
    Range adj;
    for (auto d : {1, 2})
      CHKERR moab.get_adjacencies(side_ents3d.subset_by_type(MBTET), d, create,
                                  adj, moab::Interface::UNION);
    return adj;
  };
  Range side_adj_faces_and_edges = all_others_adj_entities(true);
  
  for (Range::iterator eit = side_adj_faces_and_edges.begin();
       eit != side_adj_faces_and_edges.end(); ++eit) {
    int num_nodes;
    const EntityHandle *conn;
    CHKERR moab.get_connectivity(*eit, conn, num_nodes, true);
    EntityHandle new_conn[num_nodes];
    int nb_new_conn = 0;
    for (int ii = 0; ii < num_nodes; ii++) {
      std::map<EntityHandle, EntityHandle>::iterator mit =
          map_nodes.find(conn[ii]);
      if (mit != map_nodes.end()) {
        new_conn[ii] = mit->second;
        nb_new_conn++;
        if (verb >= VERY_NOISY) {
          PetscPrintf(m_field.get_comm(), "nodes %u -> %d\n", conn[ii],
                      new_conn[ii]);
        }
      } else {
        new_conn[ii] = conn[ii];
      }
    }
    if (nb_new_conn == 0)
      continue;
    RefEntity_multiIndex::iterator miit_ref_ent = refined_ents_ptr->find(*eit);
    if (miit_ref_ent == refined_ents_ptr->end()) {
      SETERRQ1(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
               "entity should be in MoFem database, num_nodes = %d", num_nodes);
    }
    Range new_ent;
    switch (moab.type_from_handle(*eit)) {
    case MBEDGE:
      CHKERR moab.get_adjacencies(new_conn, 2, 1, false, new_ent);
      break;
    case MBTRI:
      CHKERR moab.get_adjacencies(new_conn, 3, 2, false, new_ent);
      break;
    default:
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "Houston we have a problem");
    }
    if (new_ent.size() != 1) {
      SETERRQ1(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
               "database inconsistency, new_ent.size() = %u", new_ent.size());
    }
    CHKERR set_parent(new_ent[0], *eit, refined_ents_ptr, cOre);
  }

  // add new prisms which parents are part of other intefaces
  Range new_3d_prims = new_3d_ents.subset_by_type(MBPRISM);
  for (Range::iterator pit = new_3d_prims.begin(); pit != new_3d_prims.end();
       ++pit) {
    // get parent entity
    EntityHandle parent_prism;
    CHKERR moab.tag_get_data(cOre.get_th_RefParentHandle(), &*pit, 1,
                             &parent_prism);
    if (moab.type_from_handle(parent_prism) != MBPRISM) {
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "this prism should have parent which is prism as well");
    }
    int num_nodes;
    // parent prism
    const EntityHandle *conn_parent;
    CHKERR moab.get_connectivity(parent_prism, conn_parent, num_nodes, true);
    Range face_side3_parent, face_side4_parent;
    CHKERR moab.get_adjacencies(conn_parent, 3, 2, false, face_side3_parent);
    CHKERR moab.get_adjacencies(&conn_parent[3], 3, 2, false,
                                face_side4_parent);
    if (face_side3_parent.size() != 1) {
      SETERRQ1(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
               "parent face3.size() = %u", face_side3_parent.size());
    }
    if (face_side4_parent.size() != 1) {
      SETERRQ1(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
               "parent face4.size() = %u", face_side4_parent.size());
    }
    // new prism
    const EntityHandle *conn;
    CHKERR moab.get_connectivity(*pit, conn, num_nodes, true);
    Range face_side3, face_side4;
    CHKERR moab.get_adjacencies(conn, 3, 2, false, face_side3);
    CHKERR moab.get_adjacencies(&conn[3], 3, 2, false, face_side4);
    if (face_side3.size() != 1) {
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY, "face3 is missing");
    }
    if (face_side4.size() != 1) {
      SETERRQ(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY, "face4 is missing");
    }
    std::vector<EntityHandle> face(2), parent_face(2);
    face[0] = *face_side3.begin();
    face[1] = *face_side4.begin();
    parent_face[0] = *face_side3_parent.begin();
    parent_face[1] = *face_side4_parent.begin();
    for (int ff = 0; ff != 2; ++ff) {
      if (parent_face[ff] == face[ff])
        continue;
      int interface_side;
      CHKERR moab.tag_get_data(th_interface_side, &parent_face[ff], 1,
                               &interface_side);
      CHKERR moab.tag_set_data(th_interface_side, &face[ff], 1,
                               &interface_side);
      EntityHandle parent_tri;
      CHKERR moab.tag_get_data(cOre.get_th_RefParentHandle(), &face[ff], 1,
                               &parent_tri);
      if (parent_tri != parent_face[ff]) {
        SETERRQ1(m_field.get_comm(), MOFEM_DATA_INCONSISTENCY,
                 "wrong parent %lu", parent_tri);
      }
    }
  }

  // finalise by adding new tets and prism ti bit level
  // FIXME: This is switch of, you can not change parent. 
  // CHKERR set_parent(refined_ents_ptr);

  CHKERR m_field.getInterface<BitRefManager>()->setBitRefLevelByDim(
      meshset_for_bit_level, 3, bit);
  CHKERR moab.delete_entities(&meshset_for_bit_level, 1);
  CHKERR moab.clear_meshset(&children[0], 3);
  MoFEMFunctionReturn(0);
}

Member Data Documentation

cOre

MoFEM::Core& MoFEM::PrismInterface::cOre

Definition at line 41 of file PrismInterface.hpp.

---

The documentation for this struct was generated from the following files:

• src/interfaces/PrismInterface.hpp
• src/interfaces/impl/PrismInterface.cpp