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/*
* image.h
*
* Handle images and image features
*
* (c) 2006-2010 Thomas White <taw@physics.org>
*
* Part of CrystFEL - crystallography with a FEL
*
*/
#ifdef HAVE_CONFIG_H
#include <config.h>
#endif
#ifndef IMAGE_H
#define IMAGE_H
#include <stdint.h>
#include <complex.h>
#include <sys/types.h>
#include "utils.h"
#include "cell.h"
#include "detector.h"
#define MAX_CELL_CANDIDATES (32)
/* Structure describing a feature in an image */
struct imagefeature {
struct image *parent;
double x;
double y;
double intensity;
/* Reciprocal space coordinates (m^-1 of course) of this feature */
double rx;
double ry;
double rz;
/* Internal use only */
int valid;
const char *name;
};
/* An opaque type representing a list of image features */
typedef struct _imagefeaturelist ImageFeatureList;
/* This structure represents a predicted peak in an image */
struct cpeak
{
/* Indices */
signed int h;
signed int k;
signed int l;
double min_distance;
/* Partiality */
double r1; /* First excitation error */
double r2; /* Second excitation error */
double p; /* Partiality */
/* Location in image */
int x;
int y;
};
/* Structure describing an image */
struct image {
float *data;
uint16_t *flags;
double *twotheta;
UnitCell *indexed_cell;
UnitCell *candidate_cells[MAX_CELL_CANDIDATES];
int ncells;
struct detector *det;
struct beam_params *beam; /* The nominal beam parameters */
char *filename;
struct cpeak *cpeaks;
int n_cpeaks;
int id; /* ID number of the thread
* handling this image */
/* Information about the crystal */
struct quaternion orientation;
double m; /* Mosaicity in radians */
/* Per-shot radiation values */
double lambda; /* Wavelength in m */
double div; /* Divergence in radians */
double bw; /* Bandwidth as a fraction */
double f0; /* Incident intensity */
int f0_available; /* 0 if f0 wasn't available
* from the input. */
int width;
int height;
ImageFeatureList *features;
/* DirAx auto-indexing low-level stuff */
int dirax_pty;
pid_t dirax_pid;
char *dirax_rbuffer;
int dirax_rbufpos;
int dirax_rbuflen;
/* DirAx auto-indexing high-level stuff */
int dirax_step;
int dirax_read_cell;
int best_acl;
int best_acl_nh;
int acls_tried[MAX_CELL_CANDIDATES];
int n_acls_tried;
};
/* An opaque type representing a list of images */
typedef struct _imagelist ImageList;
/* Image lists */
extern ImageList *image_list_new(void);
extern int image_add(ImageList *list, struct image *image);
/* Feature lists */
extern ImageFeatureList *image_feature_list_new(void);
extern void image_feature_list_free(ImageFeatureList *flist);
extern void image_add_feature(ImageFeatureList *flist, double x, double y,
struct image *parent, double intensity,
const char *name);
extern void image_remove_feature(ImageFeatureList *flist, int idx);
extern struct imagefeature *image_feature_closest(ImageFeatureList *flist,
double x, double y, double *d,
int *idx);
extern int image_feature_count(ImageFeatureList *flist);
extern struct imagefeature *image_get_feature(ImageFeatureList *flist, int idx);
#endif /* IMAGE_H */
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