ALI_PT Class Reference

#include <ali_pt.hxx>

Inheritance diagram for ALI_PT:

Collaboration diagram for ALI_PT:

Public Member Functions
	ALI_PT (ALI_PT_CONTEXT *context)
	~ALI_PT ()
int	find_family (ALI_SEQUENCE *sequence, int find_type=1)
ALI_TLIST< ali_pt_member * > *	get_family_list ()
ALI_TLIST< ali_pt_member * > *	get_extension_list ()
int	first_family_ (char **seq_name, int *matches)
int	next_family_ (char **seq_name, int *matches)

Detailed Description

Definition at line 58 of file ali_pt.hxx.

Constructor & Destructor Documentation

ALI_PT::ALI_PT

(

ALI_PT_CONTEXT *

context

)

Definition at line 132 of file ali_pt.cxx.

References ali_fatal_error(), ali_message(), ARB_strdup(), ALI_PT_CONTEXT::ext_list_max, ALI_PT_CONTEXT::fam_list_max, ALI_PT_CONTEXT::matches_min, NULp, ALI_PT_CONTEXT::percent_min, ServerMode, ALI_PT_CONTEXT::servername, SpecifiedMode, and ALI_PT_CONTEXT::use_specified_family.

ALI_PT::~ALI_PT

(

)

Definition at line 159 of file ali_pt.cxx.

References ALI_TLIST< T >::first(), ALI_TLIST< T >::has_next(), ALI_TLIST< T >::is_empty(), and ALI_TLIST< T >::next().

Member Function Documentation

int ALI_PT::find_family	(	ALI_SEQUENCE *	sequence,
		int	find_type = 1
	)

Definition at line 177 of file ali_pt.cxx.

References aisc_create(), aisc_get(), ali_error(), ali_fatal_error(), ali_message(), ali_out_of_memory_if(), ALI_TLIST< T >::append_end(), bytestring::data, ALI_SEQUENCE::name(), NULp, ServerMode, bytestring::size, and ALI_SEQUENCE::string().

ALI_TLIST< ali_pt_member * > * ALI_PT::get_family_list

(

)

Definition at line 302 of file ali_pt.cxx.

References NULp.

ALI_TLIST< ali_pt_member * > * ALI_PT::get_extension_list

(

)

Definition at line 312 of file ali_pt.cxx.

References NULp.

int ALI_PT::first_family_	(	char **	seq_name,
		int *	matches
	)

int ALI_PT::next_family_	(	char **	seq_name,
		int *	matches
	)

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

• NALIGNER/ali_pt.hxx
• NALIGNER/ali_pt.cxx