GroupMatchScorer Class Reference

#include <NT_tree_cmp.h>

Public Member Functions
	GroupMatchScorer ()
GB_ERROR	check_validity () const
void	setLimits (const RatioLimits &ingroupLimits, const RatioLimits &outgroupLimits)
void	setPerErrorPenalties (double ingroup_pep, double outgroup_pep, double unfound_pep)
void	setRelativePenalties (double ingroup_inv_relpen, double outgroup_relpen)
GroupPenalty	matchGroups (const TSpecSet &sourceSet, const RSpecSet &targetSet, long commonSpecies, long overallSpecies)
double	calcUnknownMembersPenalty (const TSpecSet &sourceSet) const

Detailed Description

Definition at line 112 of file NT_tree_cmp.h.

Constructor & Destructor Documentation

GroupMatchScorer::GroupMatchScorer ( )

inline

Definition at line 135 of file NT_tree_cmp.h.

Member Function Documentation

GB_ERROR GroupMatchScorer::check_validity

(

)

const

Definition at line 146 of file NT_tree_cmp.cxx.

References RatioLimits::isValid(), and NULp.

Referenced by NTREE_move_tree_info().

void GroupMatchScorer::setLimits ( const RatioLimits &  ingroupLimits, const RatioLimits &  outgroupLimits  )

inline

Definition at line 147 of file NT_tree_cmp.h.

References RatioLimits::insideLimits(), and nt_assert.

Referenced by ad_move_tree_info().

void GroupMatchScorer::setPerErrorPenalties ( double  ingroup_pep, double  outgroup_pep, double  unfound_pep  )

inline

Definition at line 154 of file NT_tree_cmp.h.

Referenced by ad_move_tree_info().

void GroupMatchScorer::setRelativePenalties ( double  ingroup_inv_relpen, double  outgroup_relpen  )

inline

Definition at line 159 of file NT_tree_cmp.h.

Referenced by ad_move_tree_info().

GroupPenalty GroupMatchScorer::matchGroups	(	const TSpecSet &	sourceSet,
		const RSpecSet &	targetSet,
		long	commonSpecies,
		long	overallSpecies
	)

calculate score of group match (tests normal and keeled insertion, reports better)

Parameters

sourceSet	tested set (= named group in source tree (if moving groups))
targetSet	registered set (= subtree of target tree (if moving groups))
commonSpecies	number of species common in sourceSet and targetSet
overallSpecies	number of registered species (in SpecSetRegistry)

Returns

better GroupPenalty

Definition at line 106 of file NT_tree_cmp.cxx.

References GroupPenalty::addPenalty(), GroupPenalty::betterThan(), GroupPenalty::doesMatch(), SpecSet::get_known_members(), implicated, GroupPenalty::mark_as_keeled(), and nt_assert.

Referenced by SpecSetRegistry::search_best_match().

double GroupMatchScorer::calcUnknownMembersPenalty

(

const TSpecSet &

sourceSet

)

const

Definition at line 142 of file NT_tree_cmp.cxx.

References TSpecSet::get_unknown_members().

Referenced by GroupPenalty::registerUnfound().

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The documentation for this class was generated from the following files:

• NTREE/NT_tree_cmp.h
• NTREE/NT_tree_cmp.cxx