Go to the source code of this file.
Macros | |
| #define | DEFAULT_BRANCH_LENGTH_MARKER -1000.0 |
Functions | |
| bool | is_marked_as_default_len (GBT_LEN len) |
| void | TREE_scale (TreeNode *tree, double length_scale, double bootstrap_scale, WarningConsumer warn) |
| TreeNode * | TREE_load (const char *path, TreeRoot *troot, char **commentPtr, bool allow_length_scaling, char **warningPtr) |
| GB_ERROR | TREE_load_to_db (GBDATA *gb_main, const char *treefile, const char *tree_name, const LabelTranslator &translator) |
Macro Definition Documentation
| #define DEFAULT_BRANCH_LENGTH_MARKER -1000.0 |
Definition at line 22 of file TreeRead.h.
Referenced by is_marked_as_default_len(), and TreeReader::load().
Function Documentation
|
inline |
Definition at line 23 of file TreeRead.h.
References DEFAULT_BRANCH_LENGTH_MARKER.
Referenced by TREE_scale().
| void TREE_scale | ( | TreeNode * | tree, |
| double | length_scale, | ||
| double | bootstrap_scale, | ||
| WarningConsumer | warn | ||
| ) |
Definition at line 14 of file TreeTools.cxx.
References DEFAULT_BRANCH_LENGTH, TreeNode::get_brother(), TreeNode::is_leaf(), is_marked_as_default_len(), TreeNode::is_rightson(), TreeNode::is_root_node(), TreeNode::is_son_of_root(), TreeNode::leftlen, TreeNode::leftson, TreeNode::parse_bootstrap(), REMARK_BOOTSTRAP, REMARK_NONE, REMARK_OTHER, TreeNode::rightlen, TreeNode::rightson, and TreeNode::set_bootstrap().
Referenced by main(), and TREE_load().
| TreeNode* TREE_load | ( | const char * | path, |
| TreeRoot * | troot, | ||
| char ** | commentPtr, | ||
| bool | allow_length_scaling, | ||
| char ** | warningPtr | ||
| ) |
Definition at line 734 of file TreeRead.cxx.
References TreeReader::add_drop_summary_warning_if_suppressed(), TreeRoot::delete_by_node(), destroy(), error(), TreeReader::error, GB_export_errorf(), GBS_global_string(), GBS_log_action_to(), TreeReader::get_max_found_bootstrap(), TreeReader::get_max_found_branchlen(), TreeNode::get_remark(), TreeNode::get_remark_ptr(), TreeNode::get_root_node(), TreeReader::get_warnings(), TreeNode::has_valid_root_remarks(), TreeNode::is_inner_node_with_remark(), TreeNode::is_leaf(), TreeReader::load(), name_only(), NULp, TreeReader::takeComment(), tree, tree_assert, TREE_scale(), TreeNode::use_as_remark(), and warningToConsumingReader().
Referenced by ARB_main(), build_consensus_tree(), main(), and TREE_load_to_db().
| GB_ERROR TREE_load_to_db | ( | GBDATA * | gb_main, |
| const char * | treefile, | ||
| const char * | tree_name, | ||
| const LabelTranslator & | translator | ||
| ) |
Definition at line 847 of file TreeRead.cxx.
References GB_transaction::close(), destroy(), error(), GB_await_error(), GBT_message(), GBT_write_tree_with_remark(), NULp, ta, TREE_load(), TREE_translate_labels(), and warnings.
Referenced by calc_pvp(), and tree_load_cb().
