ProbScan.cpp File Reference

#include "../src/pfunction.h"
#include "ProbScan.h"
#include "../src/structure.h"
#include <algorithm>
#include <functional>
#include <numeric>
#include <iomanip>
#include <assert.h>
#include <cmath>

Functions
basestack_t	basestack (double p, int i, int j, int k, int l)
PFPRECISION	prev_val (int index, int offset, vector< vector< PFPRECISION > > &arr)
hairpin_t	hairpin (double p, int i, int j)
internal_loop_t	internal_loop (double p, int i, int j, int k, int l)
multibranch_loop_t	multibranch_loop (int i, int j)
void	add_branch (multibranch_loop_t &mb, int k, int l)
void	show_hairpins (vector< hairpin_t > hairpins, bool fixed)
void	show_internal_loops (vector< internal_loop_t > internals, bool fixed)
void	show_bulge_loops (vector< internal_loop_t > internals, bool fixed)
void	show_stacks (vector< basestack_t > stacks, bool fixed)
void	show_mb_element_array (vector< mb_element > e)
void	show_mbl (multibranch_loop_t mb, bool fixed)

Variables
static const int	max_internal_loop =30

Function Documentation

add_branch()

void add_branch	(	multibranch_loop_t &	mb,
		int	k,
		int	l
	)

basestack()

basestack_t basestack	(	double	p,
		int	i,
		int	j,
		int	k,
		int	l
	)

hairpin()

hairpin_t hairpin	(	double	p,
		int	i,
		int	j
	)

internal_loop()

internal_loop_t internal_loop	(	double	p,
		int	i,
		int	j,
		int	k,
		int	l
	)

multibranch_loop()

multibranch_loop_t multibranch_loop	(	int	i,
		int	j
	)

prev_val()

PFPRECISION prev_val	(	int	index,
		int	offset,
		vector< vector< PFPRECISION > > &	arr
	)

show_bulge_loops()

void show_bulge_loops	(	vector< internal_loop_t >	internals,
		bool	fixed
	)

show_hairpins()

void show_hairpins	(	vector< hairpin_t >	hairpins,
		bool	fixed
	)

show_internal_loops()

void show_internal_loops	(	vector< internal_loop_t >	internals,
		bool	fixed
	)

show_mb_element_array()

void show_mb_element_array

(

vector< mb_element >

e

)

show_mbl()

void show_mbl	(	multibranch_loop_t	mb,
		bool	fixed
	)

show_stacks()

void show_stacks	(	vector< basestack_t >	stacks,
		bool	fixed
	)

Variable Documentation

max_internal_loop

const int max_internal_loop =30

static