ALI_PREALIGNER Class Reference

#include <ali_prealigner.hxx>

Inheritance diagram for ALI_PREALIGNER:

Collaboration diagram for ALI_PREALIGNER:

Public Member Functions
	ALI_PREALIGNER (ALI_PREALIGNER_CONTEXT *context, ALI_PROFILE *profile, unsigned long start_x, unsigned long end_x, unsigned long start_y, unsigned long end_y)
	~ALI_PREALIGNER ()
ALI_SEQUENCE *	sequence ()
ALI_SEQUENCE *	sequence_without_inserts ()
ALI_SUB_SOLUTION *	solution ()
ALI_TLIST < ali_prealigner_approx_element * > *	approximation ()

Detailed Description

Definition at line 199 of file ali_prealigner.hxx.

Constructor & Destructor Documentation

ALI_PREALIGNER::ALI_PREALIGNER	(	ALI_PREALIGNER_CONTEXT *	context,
		ALI_PROFILE *	profile,
		unsigned long	start_x,
		unsigned long	end_x,
		unsigned long	start_y,
		unsigned long	end_y
	)

Definition at line 1041 of file ali_prealigner.cxx.

References ali_message(), ali_prealigner_mask::delete_expensive(), ali_prealigner_mask::map, and ALI_PREALIGNER_CONTEXT::max_number_of_maps.

ALI_PREALIGNER::~ALI_PREALIGNER ( )

inline

Definition at line 269 of file ali_prealigner.hxx.

Member Function Documentation

ALI_SEQUENCE* ALI_PREALIGNER::sequence ( )

inline

Definition at line 274 of file ali_prealigner.hxx.

References ali_prealigner_mask::map, ALI_MAP::sequence(), and ALI_PROFILE::sequence().

Referenced by ARB_main().

ALI_SEQUENCE* ALI_PREALIGNER::sequence_without_inserts ( )

inline

Definition at line 277 of file ali_prealigner.hxx.

References ali_prealigner_mask::map, ALI_PROFILE::sequence(), and ALI_MAP::sequence_without_inserts().

Referenced by ARB_main().

ALI_SUB_SOLUTION* ALI_PREALIGNER::solution ( )

inline

Definition at line 280 of file ali_prealigner.hxx.

References NULp.

Referenced by ARB_main().

ALI_TLIST<ali_prealigner_approx_element *>* ALI_PREALIGNER::approximation ( )

inline

Definition at line 285 of file ali_prealigner.hxx.

References ali_prealigner_approximation::list().

Referenced by ARB_main().

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

• NALIGNER/ali_prealigner.hxx
• NALIGNER/ali_prealigner.cxx