oldbionj.c File Reference

#include <stdio.h>
#include <stdlib.h>
#include <string.h>

Classes
struct	word
struct	pointers
Defines
#define	PREC   8
#define	PRC   12
#define	LEN   30
Typedefs
typedef struct word	WORD
typedef struct pointers	POINTERS
Functions
void	Initialize (float **delta, FILE *input, int n, POINTERS *trees)
void	Compute_sums_Sx (float **delta, int n)
void	Best_pair (float **delta, int r, int *a, int *b, int n)
void	Finish (float **delta, int n, POINTERS *trees, FILE *output)
void	Concatenate (char chain1[LEN], int ind, POINTERS *trees, int post)
void	Print_output (int i, POINTERS *trees, FILE *output)
float	Distance (int i, int j, float **delta)
float	Variance (int i, int j, float **delta)
float	Sum_S (int i, float **delta)
float	Agglomerative_criterion (int i, int j, float **delta, int r)
float	Branch_length (int a, int b, float **delta, int r)
float	Reduction4 (int a, float la, int b, float lb, int i, float lamda, float **delta)
float	Reduction10 (int a, int b, int i, float lamda, float vab, float **delta)
float	Lamda (int a, int b, float vab, float **delta, int n, int r)
float	Finish_branch_length (int i, int j, int k, float **delta)
int	Emptied (int i, float **delta)
int	Symmetrize (float **delta, int n)
int	main (int argc, char **argv)

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Define Documentation

#define LEN   30

#define PRC   12

#define PREC   8

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Typedef Documentation

typedef struct pointers POINTERS

typedef struct word WORD

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Function Documentation

float Agglomerative_criterion	(	int	i,
		int	j,
		float **	delta,
		int	r
	)

References Distance(), and Sum_S().

Referenced by Best_pair().

void Best_pair	(	float **	delta,
		int	r,
		int *	a,
		int *	b,
		int	n
	)

References Agglomerative_criterion(), and Emptied().

Referenced by main().

float Branch_length	(	int	a,
		int	b,
		float **	delta,
		int	r
	)

References Distance(), length, and Sum_S().

Referenced by main().

void Compute_sums_Sx	(	float **	delta,
		int	n
	)

References Distance(), and Emptied().

Referenced by main().

void Concatenate	(	char	chain1[LEN],
		int	ind,
		POINTERS *	trees,
		int	post
	)

References pointers::head, word::name, word::suiv, and pointers::tail.

Referenced by main().

float Distance	(	int	i,
		int	j,
		float **	delta
	)

Referenced by Agglomerative_criterion(), Branch_length(), Compute_sums_Sx(), Finish_branch_length(), and Reduction4().

int Emptied	(	int	i,
		float **	delta
	)

Referenced by Best_pair(), Compute_sums_Sx(), Finish(), Lamda(), and main().

void Finish	(	float **	delta,
		int	n,
		POINTERS *	trees,
		FILE *	output
	)

References Emptied(), Finish_branch_length(), pointers::head, LEN, length, PREC, Print_output(), and word::suiv.

Referenced by main().

float Finish_branch_length	(	int	i,
		int	j,
		int	k,
		float **	delta
	)

References Distance(), and length.

Referenced by Finish().

void Initialize	(	float **	delta,
		FILE *	input,
		int	n,
		POINTERS *	trees
	)

References pointers::head, LEN, word::name, name, word::suiv, and pointers::tail.

float Lamda	(	int	a,
		int	b,
		float	vab,
		float **	delta,
		int	n,
		int	r
	)

References Emptied(), and Variance().

Referenced by main().

int main	(	int	argc,
		char **	argv
	)

References Best_pair(), Branch_length(), Compute_sums_Sx(), Concatenate(), delta(), Emptied(), Finish(), pointers::head, Initialize(), input, Lamda(), LEN, ok, PRC, PREC, Reduction10(), Reduction4(), word::suiv, Symmetrize(), pointers::tail, and Variance().

void Print_output	(	int	i,
		POINTERS *	trees,
		FILE *	output
	)

References pointers::head, word::name, and word::suiv.

Referenced by Finish().

float Reduction10	(	int	a,
		int	b,
		int	i,
		float	lamda,
		float	vab,
		float **	delta
	)

References Variance().

Referenced by main().

float Reduction4	(	int	a,
		float	la,
		int	b,
		float	lb,
		int	i,
		float	lamda,
		float **	delta
	)

References Distance().

Referenced by main().

float Sum_S	(	int	i,
		float **	delta
	)

Referenced by Agglomerative_criterion(), and Branch_length().

int Symmetrize	(	float **	delta,
		int	n
	)

References value.

Referenced by main().

float Variance	(	int	i,
		int	j,
		float **	delta
	)

Referenced by Lamda(), main(), and Reduction10().