| broker_to_tree(NewickBroker const &broker) const | NewickReader | |
| broker_to_tree_destructive(NewickBroker &broker) const | NewickReader | |
| CommonTreeNewickReaderPlugin()=default | CommonTreeNewickReaderPlugin | |
| CommonTreeNewickReaderPlugin(CommonTreeNewickReaderPlugin const &)=default | CommonTreeNewickReaderPlugin | |
| CommonTreeNewickReaderPlugin(CommonTreeNewickReaderPlugin &&)=default | CommonTreeNewickReaderPlugin | |
| create_edge_data_function typedef | NewickReader | |
| create_edge_data_plugin | NewickReader | |
| create_node_data_function typedef | NewickReader | |
| create_node_data_plugin | NewickReader | |
| default_branch_length() const | CommonTreeNewickReaderPlugin | inline |
| default_branch_length(double value) | CommonTreeNewickReaderPlugin | inline |
| default_inner_name() const | CommonTreeNewickReaderPlugin | inline |
| default_inner_name(std::string const &value) | CommonTreeNewickReaderPlugin | inline |
| default_leaf_name() const | CommonTreeNewickReaderPlugin | inline |
| default_leaf_name(std::string const &value) | CommonTreeNewickReaderPlugin | inline |
| default_root_name() const | CommonTreeNewickReaderPlugin | inline |
| default_root_name(std::string const &value) | CommonTreeNewickReaderPlugin | inline |
| genesis::element_to_edge(NewickBrokerElement const &element, TreeEdge &edge) const | CommonTreeNewickReaderPlugin | inline |
| genesis::placement::PlacementTreeNewickReaderPlugin::element_to_edge(tree::NewickBrokerElement const &element, tree::TreeEdge &edge) const | PlacementTreeNewickReaderPlugin | inline |
| element_to_edge_function typedef | NewickReader | |
| element_to_edge_plugins | NewickReader | |
| element_to_node(NewickBrokerElement const &element, TreeNode &node) const | CommonTreeNewickReaderPlugin | inline |
| element_to_node_function typedef | NewickReader | |
| element_to_node_plugins | NewickReader | |
| enable_tags(bool value) | NewickReader | |
| enable_tags() const | NewickReader | |
| finish_reading(tree::Tree &tree) const | PlacementTreeNewickReaderPlugin | inline |
| finish_reading_function typedef | NewickReader | |
| finish_reading_plugins | NewickReader | |
| get_edge_num_from_comments(bool value) | PlacementTreeNewickReaderPlugin | inline |
| get_edge_num_from_comments() const | PlacementTreeNewickReaderPlugin | inline |
| NewickReader()=default | NewickReader | |
| NewickReader(NewickReader const &)=default | NewickReader | |
| NewickReader(NewickReader &&)=default | NewickReader | |
| genesis::operator=(NewickReader const &)=default | NewickReader | |
| genesis::operator=(NewickReader &&)=default | NewickReader | |
| genesis::tree::CommonTreeNewickReaderPlugin::operator=(CommonTreeNewickReaderPlugin const &)=default | CommonTreeNewickReaderPlugin | |
| genesis::tree::CommonTreeNewickReaderPlugin::operator=(CommonTreeNewickReaderPlugin &&)=default | CommonTreeNewickReaderPlugin | |
| genesis::placement::PlacementTreeNewickReaderPlugin::operator=(PlacementTreeNewickReaderPlugin const &)=default | PlacementTreeNewickReaderPlugin | |
| genesis::placement::PlacementTreeNewickReaderPlugin::operator=(PlacementTreeNewickReaderPlugin &&)=default | PlacementTreeNewickReaderPlugin | |
| parse_multiple_trees(utils::InputStream &input_stream, TreeSet &tree_set, std::string const &default_name) const | NewickReader | |
| parse_named_tree(utils::InputStream &input_stream) const | NewickReader | |
| parse_single_tree(utils::InputStream &input_stream) const | NewickReader | |
| PlacementTreeNewickReader() | PlacementTreeNewickReader | inline |
| PlacementTreeNewickReaderPlugin()=default | PlacementTreeNewickReaderPlugin | |
| PlacementTreeNewickReaderPlugin(PlacementTreeNewickReaderPlugin const &)=default | PlacementTreeNewickReaderPlugin | |
| PlacementTreeNewickReaderPlugin(PlacementTreeNewickReaderPlugin &&)=default | PlacementTreeNewickReaderPlugin | |
| prepare_reading_function typedef | NewickReader | |
| prepare_reading_plugins | NewickReader | |
| read(std::shared_ptr< utils::BaseInputSource > source) const | NewickReader | |
| read(std::shared_ptr< utils::BaseInputSource > source, TreeSet &target, std::string const &default_name="") const | NewickReader | |
| read(std::vector< std::shared_ptr< utils::BaseInputSource >> sources, TreeSet &target, std::string const &default_name="") const | NewickReader | |
| read(std::vector< std::shared_ptr< utils::BaseInputSource >> sources, std::string const &default_name="") const | NewickReader | |
| genesis::register_with(NewickReader &reader) const | CommonTreeNewickReaderPlugin | inline |
| genesis::placement::PlacementTreeNewickReaderPlugin::register_with(tree::NewickReader &reader) const | PlacementTreeNewickReaderPlugin | inline |
| replace_name_underscores() const | CommonTreeNewickReaderPlugin | inline |
| replace_name_underscores(bool value) | CommonTreeNewickReaderPlugin | inline |
| self_type typedef | CommonTreeNewickReaderPlugin | |
| set_default_names(std::string const &value) | CommonTreeNewickReaderPlugin | inline |
| stop_after_semicolon(bool value) | NewickReader | |
| stop_after_semicolon() const | NewickReader | |
| use_default_names() const | CommonTreeNewickReaderPlugin | inline |
| use_default_names(bool value) | CommonTreeNewickReaderPlugin | inline |
| ~CommonTreeNewickReaderPlugin()=default | CommonTreeNewickReaderPlugin | virtual |
| ~NewickReader()=default | NewickReader | virtual |
| ~PlacementTreeNewickReaderPlugin()=default | PlacementTreeNewickReaderPlugin | virtual |
1.8.17