freecontact.h File Reference

#include <errno.h>
#include <map>
#include <math.h>
#include <stdexcept>
#include <stdint.h>
#include <string.h>
#include <vector>

Go to the source code of this file.

Classes
class	freecontact::alilen_error
	Alignment length exception. More...
class	freecontact::icme_timeout_error
	Inverse covariance matrix estimation timeout exception. More...
class	freecontact::ali_t
	Protein sequence alignment. More...
struct	freecontact::contact_t
	Contact prediction. More...
struct	freecontact::parset_t
	Parameter set structure for predictor::run(). More...
class	freecontact::predictor
	Protein residue contact predictor. More...

Namespaces
	freecontact

Macros
#define	LIBFREEC_API   __attribute__ ((visibility ("default")))
#define	LIBFREEC_LOCAL   __attribute__ ((visibility ("hidden")))

Typedefs
typedef long long __m128i	freecontact::__attribute__((__vector_size__(16), __may_alias__))

Functions
const parset_t	freecontact::ps_evfold (0.70, 0.0, 0.9, 1, 0.0, 0.5, false, 0.0, true, true, -1)
const parset_t	freecontact::ps_psicov (0.62, 0.03, 0.9, 5, 1.0, 0.0, true, 0.1, false, false, -1)
const parset_t	freecontact::ps_psicov_sd (0.62, 0.0, 0.9, 5, 1.0, 0.0, true, 0.1, false, false, 0.001)

Variables
static const uint8_t	freecontact::aamap_gapidx = 20
static const uint8_t	freecontact::aamap []
static const uint8_t	freecontact::mapaa []

Macro Definition Documentation

LIBFREEC_API

#define LIBFREEC_API   __attribute__ ((visibility ("default")))

Definition at line 31 of file freecontact.h.

LIBFREEC_LOCAL

#define LIBFREEC_LOCAL   __attribute__ ((visibility ("hidden")))

Definition at line 32 of file freecontact.h.