aboutsummaryrefslogtreecommitdiff
path: root/src/image.h
blob: db1b491ebb594099fbde29ec8fc94ebe1a8adbfd (plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
/*
 * 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;

	/* Partner for this feature (in another feature list) or NULL */
	struct imagefeature_struct	*partner;

	/* Distance between this feature and its partner, if any. */
	double				partner_d;

	/* 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;


/* A 3D vector in reciprocal space */
struct rvec
{
	double   u;
	double   v;
	double   w;
};


struct reflhit {
	signed int h;
	signed int k;
	signed int l;
	double min_distance;
	int x;
	int y;
};


/* Structure describing an image */
struct image {

	float			*data;
	double			*twotheta;
	UnitCell		*indexed_cell;
	UnitCell		*candidate_cells[MAX_CELL_CANDIDATES];
	int			ncells;
	struct detector		det;
	const char		*filename;
	struct reflhit		*hits;
	int			n_hits;

	int			id;

	struct quaternion	orientation;

	/* Wavelength must always be given */
	double			lambda;		/* Wavelength in m */

	/* Incident intensity (if unknown, put 1.0) */
	double			f0;
	int			f0_available;

	int			width;
	int			height;

	ImageFeatureList	*features;	/* "Experimental" 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 */