TreeRead.cxx File Reference

#include "TreeRead.h"
#include <TreeNode.h>
#include <arb_msg_fwd.h>
#include <arb_strbuf.h>
#include <arb_strarray.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_READER_WARN   100
#define	NAME_TOO_LONG   ((s-buffer)>MAX_NAME_LEN)

Functions
void	append_leaf_redef_details (GBS_strstruct &summary, int droppedAtLeaf, int droppedRedefined)
static TreeNode *	createLinkedTreeNode (const TreeRoot &nodeMaker, TreeNode *left, GBT_LEN leftlen, TreeNode *right, GBT_LEN rightlen)
static void	warningToConsumingReader (const char *msg)
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)

Variables
static TreeReader *	consumingReader = NULp

Macro Definition Documentation

#define tree_assert

(

cond

)

arb_assert(cond)

Definition at line 21 of file TreeRead.cxx.

Referenced by TREE_load().

#define MAX_READER_WARN   100

Definition at line 48 of file TreeRead.cxx.

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

Function Documentation

void append_leaf_redef_details ( GBS_strstruct &  summary, int  droppedAtLeaf, int  droppedRedefined  )

inline

Definition at line 365 of file TreeRead.cxx.

References GBS_strstruct::cat(), and GBS_strstruct::putlong().

Referenced by TreeReader::add_drop_summary_warning_if_suppressed().

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

static

Definition at line 595 of file TreeRead.cxx.

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

static void warningToConsumingReader ( const char *  msg )

static

Definition at line 730 of file TreeRead.cxx.

References TreeReader::add_warning().

Referenced by 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().

Variable Documentation

TreeReader* consumingReader = NULp

static

Definition at line 729 of file TreeRead.cxx.