TreeRead.cxx File Reference

#include "TreeRead.h"
#include <TreeNode.h>
#include <arb_msg_fwd.h>
#include <arb_strbuf.h>
#include <arb_file.h>
#include <arb_defs.h>
#include <algorithm>

Include dependency graph for TreeRead.cxx:

Go to the source code of this file.

Classes
class	TreeReader

Macros
#define	tree_assert(cond)   arb_assert(cond)
#define	MAX_DROPPED_GROUP_WARN   100
#define	NAME_TOO_LONG   ((s-buffer)>MAX_NAME_LEN)

Functions
static TreeNode *	createLinkedTreeNode (const TreeRoot &nodeMaker, TreeNode *left, GBT_LEN leftlen, TreeNode *right, GBT_LEN rightlen)
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)

Macro Definition Documentation

#define tree_assert

(

cond

)

arb_assert(cond)

Definition at line 20 of file TreeRead.cxx.

Referenced by TREE_load().

#define MAX_DROPPED_GROUP_WARN   100

---

load a tree from file system

Definition at line 26 of file TreeRead.cxx.

#define NAME_TOO_LONG   ((s-buffer)>MAX_NAME_LEN)

Function Documentation

static TreeNode* createLinkedTreeNode ( const TreeRoot &  nodeMaker, TreeNode *  left, GBT_LEN  leftlen, TreeNode *  right, GBT_LEN  rightlen  )

static

Definition at line 483 of file TreeRead.cxx.

References TreeNode::father, TreeNode::leftlen, TreeNode::leftson, TreeRoot::makeNode(), TreeNode::rightlen, and TreeNode::rightson.

TreeNode* TREE_load	(	const char *	path,
		TreeRoot *	troot,
		char **	commentPtr,
		bool	allow_length_scaling,
		char **	warningPtr
	)

Definition at line 620 of file TreeRead.cxx.

References 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(), TreeReader::get_warnings(), TreeNode::is_leaf(), TreeReader::load(), name_only(), NULp, TreeReader::takeComment(), tree, tree_assert, and TREE_scale().

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
	)

Definition at line 701 of file TreeRead.cxx.

References GB_transaction::close(), destroy(), error(), GB_await_error(), GBT_message(), GBT_write_tree_with_remark(), NULp, ta, TREE_load(), and warnings.

Referenced by calc_pvp(), and tree_load_cb().