|
| | DatabaseIO (Ioss::Region *region, const std::string &filename, Ioss::DatabaseUsage db_usage, Ioss_MPI_Comm communicator, const Ioss::PropertyManager &props) |
| |
| IOSS_NODISCARD int | get_file_pointer () const override |
| |
| | BaseDatabaseIO (Ioss::Region *region, const std::string &filename, Ioss::DatabaseUsage db_usage, Ioss_MPI_Comm communicator, const Ioss::PropertyManager &props) |
| |
| IOSS_NODISCARD std::string | get_format () const override |
| |
| IOSS_NODISCARD unsigned | entity_field_support () const override |
| |
| | DatabaseIO ()=delete |
| |
| | DatabaseIO (const DatabaseIO &)=delete |
| |
| | DatabaseIO (DatabaseIO &&)=delete |
| |
| DatabaseIO & | operator= (const DatabaseIO &)=delete |
| |
| DatabaseIO & | operator= (DatabaseIO &&)=delete |
| |
| virtual | ~DatabaseIO () |
| |
| IOSS_NODISCARD bool | ok (bool write_message=false, std::string *error_message=nullptr, int *bad_count=nullptr) const |
| | Check to see if database state is OK.
|
| |
| IOSS_NODISCARD bool | using_parallel_io () const |
| |
| IOSS_NODISCARD int64_t | node_global_to_local (int64_t global, bool must_exist) const |
| | Get the local (process-specific) node number corresponding to a global node number.
|
| |
| IOSS_NODISCARD int64_t | element_global_to_local (int64_t global) const |
| |
| virtual IOSS_NODISCARD bool | node_major () const |
| |
| void | release_memory () |
| |
| virtual void | finalize_database () const |
| |
| void | set_pfs_name (const std::string &name) const |
| |
| IOSS_NODISCARD std::string | get_pfs_name () const |
| |
| void | set_dw_name (const std::string &name) const |
| | this will be the name in BB namespace
|
| |
| IOSS_NODISCARD std::string | get_dw_name () const |
| |
| IOSS_NODISCARD std::string | get_dw_path () const |
| | We call this ONLY after we assure that using_dw() is TRUE.
|
| |
| void | check_set_dw () const |
| |
| IOSS_NODISCARD bool | using_dw () const |
| |
| IOSS_NODISCARD std::string | get_filename () const |
| | Get the file name associated with the database.
|
| |
| IOSS_NODISCARD const std::string & | decoded_filename () const |
| | Get a file-per-processor filename associated with the database.
|
| |
| IOSS_NODISCARD bool | is_input () const |
| | Determine whether the database is an input database.
|
| |
| IOSS_NODISCARD Ioss::DatabaseUsage | usage () const |
| | Get the Ioss::DatabaseUsage type of the database.
|
| |
| virtual IOSS_NODISCARD bool | needs_shared_node_information () const |
| | Determine whether the database needs information about process ownership of nodes.
|
| |
| IOSS_NODISCARD Ioss::IfDatabaseExistsBehavior | open_create_behavior () const |
| |
| void | set_region (Region *region) |
| |
| void | open_dw (const std::string &filename) const |
| | If we are planning to use BB(aka Burst Buffer) service, we will call simple C API provided by Cray DataWarp module.
|
| |
| void | close_dw () const |
| | Function which invokes stageout from BB to Disk, prior to completion of final close.
|
| |
| void | openDatabase () const |
| |
| void | closeDatabase () const |
| |
| void | flush_database () const |
| |
| void | reset_database () |
| |
| bool | open_internal_change_set (const std::string &set_name) |
| | If a database type supports internal change sets and if the database contains internal change sets, open the specified set.
|
| |
| bool | create_internal_change_set (const std::string &set_name) |
| | If a database type supports internal change sets, create the specified set.
|
| |
| int | num_internal_change_set () |
| | If a database type supports internal change sets, and if the database contains internal change sets, return the number of change sets.
|
| |
| bool | open_internal_change_set (int set_index) |
| | If a database type supports internal change sets, open the change set specified [zero-based] index.
|
| |
| Ioss::NameList | internal_change_set_describe (bool return_full_names=false) |
| | If a database type supports internal change sets, return a list of set names.
|
| |
| bool | supports_internal_change_set () |
| | Checks if a database type supports internal change sets.
|
| |
| virtual IOSS_NODISCARD std::string | get_internal_change_set_name () const |
| |
| bool | begin (Ioss::State state) |
| | Set the database to the given State.
|
| |
| bool | end (Ioss::State state) |
| | Return the database to STATE_CLOSED.
|
| |
| bool | begin_state (int state, double time) |
| |
| bool | end_state (int state, double time) |
| |
| void | read_meta_data () |
| |
| void | get_step_times () |
| |
| std::vector< double > | get_db_step_times () |
| | Return the list of timesteps in the database contingent on certain controlling properties.
|
| |
| virtual IOSS_NODISCARD bool | internal_edges_available () const |
| |
| virtual IOSS_NODISCARD bool | internal_faces_available () const |
| |
| IOSS_NODISCARD const Ioss::NameList & | get_information_records () const |
| | Get all information records (informative strings) for the database.
|
| |
| void | add_information_records (const Ioss::NameList &info) |
| | Add multiple information records (informative strings) to the database.
|
| |
| void | add_information_record (const std::string &info) |
| | Add an information record (an informative string) to the database.
|
| |
| IOSS_NODISCARD const Ioss::NameList & | get_qa_records () const |
| | Get all QA records, each of which consists of 4 strings, from the database.
|
| |
| void | add_qa_record (const std::string &code, const std::string &code_qa, const std::string &date, const std::string &time) |
| | Add a QA record, which consists of 4 strings, to the database.
|
| |
| IOSS_NODISCARD bool | get_logging () const |
| |
| void | set_logging (bool on_off) |
| |
| IOSS_NODISCARD bool | get_nan_detection () const |
| |
| void | set_nan_detection (bool on_off) |
| |
| template<typename T > |
| int64_t | get_field (const T *reg, const Field &field, void *data, size_t data_size) const |
| |
| template<typename T > |
| int64_t | put_field (const T *reg, const Field &field, void *data, size_t data_size) const |
| |
| template<typename T > |
| int64_t | get_zc_field (const T *reg, const Field &field, void **data, size_t *data_size) const |
| |
| IOSS_NODISCARD bool | is_parallel_consistent () const |
| |
| void | set_parallel_consistency (bool on_off) |
| |
| IOSS_NODISCARD bool | get_use_generic_canonical_name () const |
| |
| void | set_use_generic_canonical_name (bool yes_no) |
| |
| IOSS_NODISCARD bool | ignore_database_names () const |
| |
| void | ignore_database_names (bool yes_no) |
| |
| IOSS_NODISCARD bool | get_ignore_realn_fields () const |
| |
| void | set_ignore_realn_fields (bool yes_no) |
| |
| IOSS_NODISCARD std::string | get_component_name (const Ioss::Field &field, Ioss::Field::InOut in_out, int component) const |
| |
| IOSS_NODISCARD char | get_field_separator () const |
| |
| IOSS_NODISCARD bool | get_field_recognition () const |
| |
| IOSS_NODISCARD bool | get_field_strip_trailing_ () const |
| |
| void | set_field_separator (char separator) |
| | Set the character used to separate a field suffix from the field basename when recognizing vector, tensor fields.
|
| |
| void | set_field_recognition (bool yes_no) |
| |
| void | set_field_strip_trailing_ (bool yes_no) |
| |
| IOSS_NODISCARD DuplicateFieldBehavior | get_duplicate_field_behavior () const |
| |
| void | set_lower_case_variable_names (bool true_false) const |
| |
| void | set_surface_split_type (Ioss::SurfaceSplitType split_type) |
| |
| IOSS_NODISCARD Ioss::SurfaceSplitType | get_surface_split_type () const |
| |
| void | set_block_omissions (const Ioss::NameList &omissions, const Ioss::NameList &inclusions={}) |
| |
| void | set_assembly_omissions (const Ioss::NameList &omissions, const Ioss::NameList &inclusions={}) |
| |
| void | get_block_adjacencies (const Ioss::ElementBlock *eb, Ioss::NameList &block_adjacency) const |
| |
| void | compute_block_membership (Ioss::SideBlock *efblock, Ioss::NameList &block_membership) const |
| |
| IOSS_NODISCARD AxisAlignedBoundingBox | get_bounding_box (const Ioss::NodeBlock *nb) const |
| |
| IOSS_NODISCARD AxisAlignedBoundingBox | get_bounding_box (const Ioss::ElementBlock *eb) const |
| |
| IOSS_NODISCARD AxisAlignedBoundingBox | get_bounding_box (const Ioss::StructuredBlock *sb) const |
| |
| IOSS_NODISCARD int | int_byte_size_api () const |
| | Returns 4 or 8.
|
| |
| IOSS_NODISCARD Ioss::DataSize | int_byte_size_data_size () const |
| |
| IOSS_NODISCARD Region * | get_region () const |
| |
| void | set_cycle_count (int count) const |
| |
| IOSS_NODISCARD int | get_cycle_count () const |
| |
| void | set_overlay_count (int count) const |
| |
| IOSS_NODISCARD int | get_overlay_count () const |
| |
| void | set_file_per_state (bool yes_no) const |
| |
| IOSS_NODISCARD bool | get_file_per_state () const |
| |
| void | set_time_scale_factor (double factor) |
| |
| IOSS_NODISCARD const Ioss::ParallelUtils & | util () const |
| |
| IOSS_NODISCARD const Ioss::PropertyManager & | get_property_manager () const |
| |
| IOSS_NODISCARD int | parallel_rank () const |
| | Get the processor that this mesh database is on.
|
| |
| IOSS_NODISCARD int | parallel_size () const |
| |
| IOSS_NODISCARD bool | is_parallel () const |
| |
| void | progress (const std::string &output) const |
| |
| virtual std::vector< size_t > | get_entity_field_data (const std::string &field_name, const std::vector< Ioss::ElementBlock * > &elem_blocks, void *data, size_t data_size) const |
| |
| template<> |
| void | create_group (EntityType type, const std::string &, const Ioss::NameList &group_spec, const SideSet *) |
| |
|
| void | get_step_times_nl () override |
| |
| bool | handle_output_file (bool write_message, std::string *error_msg, int *bad_count, bool overwrite, bool abort_if_error) const override |
| |
| bool | check_valid_file_ptr (bool write_message, std::string *error_msg, int *bad_count, bool abort_if_error) const |
| |
| int64_t | put_field_internal (const Ioss::Region *reg, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::Blob *blob, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::Assembly *assem, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::NodeBlock *nb, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::EdgeBlock *eb, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::FaceBlock *eb, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::ElementBlock *eb, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::SideBlock *fb, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::NodeSet *ns, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::EdgeSet *ns, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::FaceSet *ns, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::ElementSet *ns, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::SideSet *ss, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::CommSet *cs, const Ioss::Field &field, void *data, size_t data_size) const override |
| |
| int64_t | put_field_internal (const Ioss::StructuredBlock *, const Ioss::Field &, void *, size_t) const override |
| |
| int64_t | put_Xset_field_internal (const Ioss::EntitySet *ns, const Ioss::Field &field, void *data, size_t data_size) const |
| |
| int64_t | get_Xset_field_internal (const Ioss::EntitySet *ns, const Ioss::Field &field, void *data, size_t data_size) const |
| |
| int64_t | read_nodal_coordinates () |
| |
| void | read_elements (const Ioss::ElementBlock &block) |
| |
| void | compute_node_status () const |
| |
| void | read_meta_data_nl () override |
| |
| void | read_communication_metadata () |
| |
| int64_t | read_transient_field (const Ioexnl::VariableNameMap &variables, const Ioss::Field &field, const Ioss::GroupingEntity *ge, void *data) const |
| |
| int64_t | read_attribute_field (const Ioss::Field &field, const Ioss::GroupingEntity *ge, void *data) const |
| |
| int64_t | write_attribute_field (const Ioss::Field &field, const Ioss::GroupingEntity *ge, void *data) const |
| |
| int64_t | read_ss_transient_field (const Ioss::Field &field, int64_t id, void *variables, std::vector< int > &is_valid_side) const |
| |
| void | write_nodal_transient_field (const Ioss::Field &field, const Ioss::NodeBlock *ge, int64_t count, void *variables) const |
| |
| void | write_entity_transient_field (const Ioss::Field &field, const Ioss::GroupingEntity *ge, int64_t count, void *variables) const |
| |
| void | write_meta_data (Ioss::IfDatabaseExistsBehavior behavior) override |
| |
| void | gather_communication_metadata (Ioexnl::CommunicationMetaData *meta) |
| |
| void | read_region () |
| |
| void | get_edgeblocks () |
| |
| void | get_faceblocks () |
| |
| void | get_elemblocks () |
| |
| void | get_blocks (ex_entity_type entity_type, int rank_offset, const std::string &basename) |
| |
| void | get_sidesets () |
| |
| template<typename T > |
| void | get_sets (ex_entity_type type, int64_t count, const std::string &base, const T *) |
| |
| void | get_nodesets () |
| |
| void | get_edgesets () |
| |
| void | get_facesets () |
| |
| void | get_elemsets () |
| |
| void | get_commsets () |
| |
| IOSS_NODISCARD const Ioss::Map & | get_map (ex_entity_type type) const |
| |
| IOSS_NODISCARD const Ioss::Map & | get_map (Ioss::Map &entity_map, int64_t entity_count, ex_entity_type entity_type, ex_inquiry inquiry_type) const |
| |
| int64_t | handle_node_ids (void *ids, int64_t num_to_get) const |
| |
| int64_t | handle_element_ids (const Ioss::ElementBlock *eb, void *ids, size_t num_to_get) const |
| |
| int64_t | handle_face_ids (const Ioss::FaceBlock *eb, void *ids, size_t num_to_get) const |
| |
| int64_t | handle_edge_ids (const Ioss::EdgeBlock *eb, void *ids, size_t num_to_get) const |
| |
| int64_t | get_side_connectivity (const Ioss::SideBlock *sd_blk, int64_t id, int64_t my_side_count, void *fconnect, bool map_ids) const |
| |
| template<typename INT > |
| int64_t | get_side_connectivity_internal (const Ioss::SideBlock *sd_blk, int64_t id, int64_t side_count, INT *fconnect, bool map_ids) const |
| |
| int64_t | get_side_distributions (const Ioss::SideBlock *sd_blk, int64_t id, int64_t my_side_count, double *dist_fact, size_t data_size) const |
| |
| int64_t | get_side_field (const Ioss::SideBlock *sd_blk, const Ioss::Field &field, void *data, size_t data_size) const |
| |
| int64_t | put_side_field (const Ioss::SideBlock *sd_blk, const Ioss::Field &field, void *data, size_t data_size) const |
| | true if application code is controlling the processor id.
|
| |
|
| IOSS_NODISCARD bool | ok_nl (bool write_message=false, std::string *error_message=nullptr, int *bad_count=nullptr) const override |
| |
| IOSS_NODISCARD bool | begin_nl (Ioss::State state) override |
| |
| IOSS_NODISCARD bool | end_nl (Ioss::State state) override |
| |
| void | open_state_file (int state) |
| |
| bool | begin_state_nl (int state, double time) override |
| |
| bool | end_state_nl (int state, double time) override |
| |
| IOSS_NODISCARD int | maximum_symbol_length () const override |
| | Get the length of the longest name in the database file.
|
| |
| void | set_maximum_symbol_length (int requested_symbol_size) override |
| |
| size_t | handle_block_ids (const Ioss::EntityBlock *eb, ex_entity_type map_type, Ioss::Map &entity_map, void *ids, size_t num_to_get, size_t offset) const |
| |
| void | compute_block_membership_nl (Ioss::SideBlock *efblock, Ioss::NameList &block_membership) const override |
| |
| IOSS_NODISCARD int | int_byte_size_db () const override |
| |
| void | set_int_byte_size_api (Ioss::DataSize size) const override |
| | Returns 4 or 8.
|
| |
| void | write_results_metadata (bool gather_data, Ioss::IfDatabaseExistsBehavior behavior) |
| |
| void | openDatabase_nl () const override |
| |
| void | closeDatabase_nl () const override |
| |
| virtual int | free_file_pointer () const |
| |
| IOSS_NODISCARD int | get_current_state () const |
| |
| void | put_qa () |
| |
| void | put_info () |
| |
| template<typename T > |
| void | internal_gather_results_metadata (ex_entity_type type, std::vector< T * > entities) |
| |
| void | generate_sideset_truth_table () |
| |
| void | output_results_names (ex_entity_type type, VariableNameMap &variables, bool reduction) const |
| |
| int | gather_names (VariableNameMap &variables, const Ioss::GroupingEntity *ge, int index, bool reduction) |
| |
| void | get_nodeblocks () |
| |
| void | get_assemblies () |
| |
| void | get_blobs () |
| |
| void | update_block_omissions_from_assemblies () |
| |
| void | add_attribute_fields (Ioss::GroupingEntity *block, int attribute_count, const std::string &type) |
| |
| void | common_write_metadata (Ioss::IfDatabaseExistsBehavior behavior) |
| |
| void | output_other_metadata () |
| |
| int64_t | internal_add_results_fields (ex_entity_type type, Ioss::GroupingEntity *entity, int64_t position, int64_t block_count, Ioss::IntVector &truth_table, Ioexnl::VariableNameMap &variables) |
| |
| int64_t | add_results_fields (Ioss::GroupingEntity *entity, int64_t position=0) |
| |
| int64_t | add_reduction_results_fields (Ioss::GroupingEntity *entity) |
| |
| void | add_mesh_reduction_fields (int64_t id, Ioss::GroupingEntity *entity) |
| |
| void | add_region_fields () |
| |
| void | store_reduction_field (const Ioss::Field &field, const Ioss::GroupingEntity *ge, void *variables) const |
| |
| void | get_reduction_field (const Ioss::Field &field, const Ioss::GroupingEntity *ge, void *variables) const |
| |
| void | write_reduction_fields () const |
| |
| void | read_reduction_fields () const |
| |
| IOSS_NODISCARD int | get_database_step (int global_step) const |
| |
| void | flush_database_nl () const override |
| |
| void | finalize_write (int state, double sim_time) |
| |
| | DatabaseIO (Region *region, std::string filename, Ioss::DatabaseUsage db_usage, Ioss_MPI_Comm communicator, const Ioss::PropertyManager &props) |
| |
| void | set_common_side_topology () const |
| |
| template<typename T > |
| void | create_groups (const std::string &property_name, EntityType type, const std::string &type_name, const T *set_type) |
| |
| template<typename T > |
| void | create_group (EntityType type, const std::string &type_name, const Ioss::NameList &group_spec, const T *set_type) |
| |
| void | handle_groups () |
| |
| void | check_side_topology () const |
| |
| virtual void | release_memory_nl () |
| |
| virtual void | reset_database_nl () |
| |
| int | m_exodusFilePtr {-1} |
| |
| int | m_exodusBasePtr {-1} |
| |
| std::string | m_groupName |
| |
| EntityIdSet | ids_ |
| |
| int | exodusMode {EX_CLOBBER} |
| |
| int | dbRealWordSize {8} |
| |
| int | maximumNameLength {32} |
| |
| int | spatialDimension {0} |
| |
| int64_t | edgeCount {0} |
| |
| int64_t | faceCount {0} |
| |
| std::map< ex_entity_type, int > | m_groupCount |
| |
| Ioss::Int64Vector | nodeCmapIds |
| |
| Ioss::Int64Vector | nodeCmapNodeCnts |
| |
| Ioss::Int64Vector | elemCmapIds |
| |
| Ioss::Int64Vector | elemCmapElemCnts |
| |
| int64_t | commsetNodeCount {0} |
| |
| int64_t | commsetElemCount {0} |
| |
| std::map< ex_entity_type, Ioss::IntVector > | m_truthTable |
| |
| std::map< ex_entity_type, VariableNameMap > | m_variables |
| |
| std::map< ex_entity_type, VariableNameMap > | m_reductionVariables |
| |
| std::map< ex_entity_type, std::map< int64_t, ValueContainer > > | m_reductionValues |
| |
| std::vector< unsigned char > | nodeConnectivityStatus |
| |
| std::map< std::string, Ioss::Int64Vector > | activeNodeSetNodesIndex |
| |
| time_t | timeLastFlush {0} |
| |
| int | flushInterval {-1} |
| |
| bool | fileExists {false} |
| |
| bool | minimizeOpenFiles {false} |
| |
| bool | blockAdjacenciesCalculated {false} |
| |
| bool | nodeConnectivityStatusCalculated |
| |
| Ioss::PropertyManager | properties |
| |
| ElementTopology * | commonSideTopology {nullptr} |
| |
| std::string | originalDBFilename {} |
| |
| std::string | DBFilename {} |
| |
| std::string | decodedFilename {} |
| |
| std::string | bbName {} |
| |
| std::string | pfsName {} |
| |
| std::string | dwPath {} |
| |
| Ioss::State | dbState {STATE_INVALID} |
| |
| int | myProcessor {0} |
| | number of processor this database is for
|
| |
| int64_t | nodeCount {0} |
| |
| int64_t | elementCount {0} |
| |
| TopoContainer | sideTopology {} |
| | Used to speed up faceblock/edgeblock calculations.
|
| |
| int | cycleCount {0} |
| |
| int | overlayCount {0} |
| |
| double | timeScaleFactor {1.0} |
| |
| Ioss::SurfaceSplitType | splitType {SPLIT_BY_TOPOLOGIES} |
| |
| Ioss::DatabaseUsage | dbUsage {} |
| |
| Ioss::DataSize | dbIntSizeAPI {USE_INT32_API} |
| |
| bool | filePerState {false} |
| |
| bool | usingDataWarp {false} |
| |
| bool | isParallel {false} |
| | true if running in parallel
|
| |
| bool | lowerCaseVariableNames {true} |
| |
| bool | usingParallelIO {false} |
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| Ioss::NameList | blockOmissions {} |
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| Ioss::NameList | blockInclusions {} |
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| Ioss::NameList | assemblyOmissions {} |
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| Ioss::NameList | assemblyInclusions {} |
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| Ioss::NameList | informationRecords {} |
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| Ioss::NameList | qaRecords {} |
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| Ioss::Map | nodeMap {"node", DBFilename, myProcessor} |
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| Ioss::Map | edgeMap {"edge", DBFilename, myProcessor} |
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| Ioss::Map | faceMap {"face", DBFilename, myProcessor} |
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| Ioss::Map | elemMap {"element", DBFilename, myProcessor} |
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| std::vector< std::vector< bool > > | blockAdjacency |
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Public Member Functions inherited from Ioexnl::BaseDatabaseIO