| AP_tree_root(AliView *aliView, AP_sequence *seq_proto, bool add_delete_callbacks, const group_scaling *scaling) | AP_tree_root | |
| ARB_seqtree_root(AliView *aliView, AP_sequence *seqTempl, bool add_delete_callbacks) | ARB_seqtree_root | |
| change_root(TreeNode *old, TreeNode *newroot) FINAL_OVERRIDE | AP_tree_root | virtual |
| check_update() | AP_tree_root | virtual |
| DEFINE_READ_ACCESSORS(TreeNode *, get_root_node, rootNode) | TreeRoot | |
| DEFINE_TREE_ROOT_ACCESSORS(AP_tree_root, AP_tree) | AP_tree_root | |
| ARB_seqtree_root::DEFINE_TREE_ROOT_ACCESSORS(ARB_seqtree_root, ARB_seqtree) | ARB_seqtree_root | |
| delete_by_node() | TreeRoot | inline |
| destroyNode(TreeNode *node) const OVERRIDE | AP_tree_root | inlinevirtual |
| find_innermost_edge() | TreeRoot | |
| gb_tree_gone | AP_tree_root | |
| get_aliview() const | ARB_seqtree_root | inline |
| get_filter() const | ARB_seqtree_root | inline |
| get_gb_main() const | ARB_seqtree_root | inline |
| get_gb_tree() const | ARB_seqtree_root | inline |
| get_group_scaling() const | AP_tree_root | inline |
| get_seqTemplate() const | ARB_seqtree_root | inline |
| get_tree_name() const | ARB_seqtree_root | inline |
| get_weights() const | ARB_seqtree_root | inline |
| gone_tree_name | AP_tree_root | |
| has_bootstrap() const | TreeRoot | inline |
| inform_about_delete(AP_tree *old) | AP_tree_root | |
| is_species_updated() | AP_tree_root | |
| is_tree_updated() | AP_tree_root | |
| linkToDB(int *zombies, int *duplicates) __ATTR__USERESULT | ARB_seqtree_root | |
| loadFromDB(const char *name) FINAL_OVERRIDE | AP_tree_root | virtual |
| makeNode() const OVERRIDE | AP_tree_root | inlinevirtual |
| predelete() | TreeRoot | inlineprotected |
| PREPARE_MARK_NONFINAL_CLASS(AP_tree_root) | AP_tree_root | |
| ARB_seqtree_root::PREPARE_MARK_NONFINAL_CLASS(ARB_seqtree_root) | ARB_seqtree_root | |
| rates | AP_tree_root | |
| remove_leafs(AWT_RemoveType awt_remove_type) | AP_tree_root | |
| saveToDB() OVERRIDE | AP_tree_root | virtual |
| set_bootstrap_seen(bool seen) | TreeRoot | inline |
| set_gb_tree(GBDATA *gbTree) | ARB_seqtree_root | inlineprotected |
| set_gb_tree_and_name(GBDATA *gbTree, const char *name) | ARB_seqtree_root | inlineprotected |
| set_node_deleted_callback(AP_nodeDelCb cb, void *cd) | AP_tree_root | |
| set_root_changed_callback(AP_rootChangedCb cb, void *cd) | AP_tree_root | |
| species_timer | AP_tree_root | |
| tree_deleted_cb(GBDATA *gb_tree_del) | ARB_seqtree_root | |
| tree_timer | AP_tree_root | |
| TreeRoot(bool deleteWithNodes_) | TreeRoot | inlineexplicit |
| unlinkFromDB() | ARB_seqtree_root | |
| update_timers() | AP_tree_root | |
| ~AP_tree_root() OVERRIDE | AP_tree_root | |
| ~ARB_seqtree_root() OVERRIDE | ARB_seqtree_root | |
| ~TreeRoot() | TreeRoot | virtual |
