ALI_SEQUENCE Class Reference

#include <ali_sequence.hxx>

Inheritance diagram for ALI_SEQUENCE:

Collaboration diagram for ALI_SEQUENCE:

Public Member Functions
	ALI_SEQUENCE (char *Name, char *str)
	ALI_SEQUENCE (char *Name, unsigned char *str, unsigned long str_len)
	~ALI_SEQUENCE ()
unsigned char *	sequence ()
unsigned char	base (unsigned long position)
int	check ()
char *	string ()
char *	name ()
unsigned long	length ()

Detailed Description

Definition at line 22 of file ali_sequence.hxx.

Constructor & Destructor Documentation

ALI_SEQUENCE::ALI_SEQUENCE ( char *  Name, char *  str  )

inline

Definition at line 27 of file ali_sequence.hxx.

References ali_out_of_memory_if(), and ali_string_to_sequence().

ALI_SEQUENCE::ALI_SEQUENCE ( char *  Name, unsigned char *  str, unsigned long  str_len  )

inline

Definition at line 34 of file ali_sequence.hxx.

ALI_SEQUENCE::~ALI_SEQUENCE ( )

inline

Definition at line 39 of file ali_sequence.hxx.

Member Function Documentation

unsigned char* ALI_SEQUENCE::sequence ( )

inline

Definition at line 45 of file ali_sequence.hxx.

Referenced by ALI_NORM_SEQUENCE::ALI_NORM_SEQUENCE().

unsigned char ALI_SEQUENCE::base ( unsigned long  position )

inline

Definition at line 48 of file ali_sequence.hxx.

Referenced by ALI_PROFILE::w_binding().

int ALI_SEQUENCE::check

(

)

Definition at line 18 of file ali_sequence.cxx.

References ali_fatal_error().

char * ALI_SEQUENCE::string

(

)

Definition at line 30 of file ali_sequence.cxx.

References ali_sequence_to_string(), and CALLOC().

Referenced by ARB_main(), ALI_PT::find_family(), and ALI_ARBDB::put_sequence().

char* ALI_SEQUENCE::name ( )

inline

Definition at line 53 of file ali_sequence.hxx.

Referenced by ALI_NORM_SEQUENCE::ALI_NORM_SEQUENCE(), and ALI_PT::find_family().

unsigned long ALI_SEQUENCE::length ( )

inline

Definition at line 56 of file ali_sequence.hxx.

Referenced by ALI_NORM_SEQUENCE::ALI_NORM_SEQUENCE(), and ALI_PROFILE::w_binding().

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

• NALIGNER/ali_sequence.hxx
• NALIGNER/ali_sequence.cxx