hdfsee.c 6.88 KB
Newer Older
Thomas White's avatar
Thomas White committed
1
2
3
4
5
/*
 * hdfsee.c
 *
 * Quick yet non-crappy HDF viewer
 *
Thomas White's avatar
Thomas White committed
6
 * Copyright © 2012 Thomas White <taw@physics.org>
Thomas White's avatar
Thomas White committed
7
 *
Thomas White's avatar
Thomas White committed
8
9
10
11
12
13
14
15
16
17
18
19
20
21
 * This file is part of CrystFEL.
 *
 * CrystFEL is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 *
 * CrystFEL is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with CrystFEL.  If not, see <http://www.gnu.org/licenses/>.
Thomas White's avatar
Thomas White committed
22
23
24
25
26
27
28
29
30
 *
 */


#ifdef HAVE_CONFIG_H
#include <config.h>
#endif

#include <gtk/gtk.h>
31
#include <getopt.h>
Thomas White's avatar
Thomas White committed
32

33
#include "dw-hdfsee.h"
Thomas White's avatar
Thomas White committed
34
#include "utils.h"
35
#include "render.h"
Thomas White's avatar
Thomas White committed
36
37
38
39
40
41
42


/* Global program state */
DisplayWindow *main_window_list[64];
size_t main_n_windows = 0;


43
44
45
46
47
48
49
50
51
static void show_help(const char *s)
{
	printf("Syntax: %s [options] image.h5\n\n", s);
	printf(
"Quick HDF5 image viewer.\n"
"\n"
"  -h, --help                       Display this help message.\n"
"\n"
"  -p, --peak-overlay=<filename>    Draw circles in positions listed in file.\n"
52
"      --ring-size=<n>              Set the size for those circles.\n"
53
"  -i, --int-boost=<n>              Multiply intensity by <n>.\n"
54
"  -b, --binning=<n>                Set display binning to <n>.\n"
55
56
57
58
59
"      --filter-cm                  Perform common-mode noise subtraction.\n"
"      --filter-noise               Apply an aggressive noise filter which\n"
"                                    sets all pixels in each 3x3 region to\n"
"                                    zero if any of them have negative\n"
"                                    values.\n"
60
61
"      --show-rings                 Overlay rings that indicate resolution.\n"
"      --simple-rings=XX,YY,...     Overlay rings at specified radii XX, YY, ...\n"
Thomas White's avatar
Thomas White committed
62
"                                    in pixel units.\n"
63
64
65
66
67
68
"  -c, --colscale=<scale>           Use the given colour scale.  Choose from:\n"
"                                    mono    : Greyscale, black is zero.\n"
"                                    invmono : Greyscale, white is zero.\n"
"                                    colour  : Colour scale:\n"
"                                               black-blue-pink-red-orange-\n"
"                                               -yellow-white.\n"
Thomas White's avatar
Thomas White committed
69
70
"  -e, --image=<element>            Start up displaying this image from the\n"
"                                    HDF5 file.  Example: /data/data0.\n"
Thomas White's avatar
Thomas White committed
71
"  -g, --geometry=<filename>        Use geometry from file for display.\n"
72
73
74
75
"\n");
}


Thomas White's avatar
Thomas White committed
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
/* Called to notify that an image display window has been closed */
void hdfsee_window_closed(DisplayWindow *dw)
{
	size_t i;

	for ( i=0; i<main_n_windows; i++ ) {

		if ( main_window_list[i] == dw ) {

			size_t j;

			for ( j=i+1; j<main_n_windows; j++ ) {
				main_window_list[j] = main_window_list[j+1];
			}

		}

	}

	main_n_windows--;

	if ( main_n_windows == 0 ) gtk_exit(0);

}


int main(int argc, char *argv[])
{
104
105
106
107
	int c;
	size_t i;
	int nfiles;
	char *peaks = NULL;
108
109
	int boost = 1;
	int binning = 2;
110
111
	int config_cmfilter = 0;
	int config_noisefilter = 0;
Thomas White's avatar
Thomas White committed
112
	int config_showrings = 0;
113
114
	int colscale = SCALE_COLOUR;
	char *cscale = NULL;
Thomas White's avatar
Thomas White committed
115
	char *element = NULL;
116
	char *geometry = NULL;
117
	double ring_size = 5.0;
118
119
120
	char *reslist = NULL;
	double ring_radii[128];
	int n_rings = -1;
Thomas White's avatar
Thomas White committed
121

122
123
124
125
	/* Long options */
	const struct option longopts[] = {
		{"help",               0, NULL,               'h'},
		{"peak-overlay",       1, NULL,               'p'},
126
127
		{"int-boost",          1, NULL,               'i'},
		{"binning",            1, NULL,               'b'},
128
129
		{"filter-cm",          0, &config_cmfilter,    1},
		{"filter-noise",       0, &config_noisefilter, 1},
130
		{"colscale",           1, NULL,               'c'},
Thomas White's avatar
Thomas White committed
131
		{"image",              1, NULL,               'e'},
132
		{"geometry",           1, NULL,               'g'},
Thomas White's avatar
Thomas White committed
133
		{"show-rings",         0, &config_showrings,   1},
134
		{"ring-size",          1, NULL,                2},
135
		{"simple-rings",       1, NULL,               'r'},
136
137
138
		{0, 0, NULL, 0}
	};

Thomas White's avatar
Thomas White committed
139
140
	gtk_init(&argc, &argv);

141
	/* Short options */
142
	while ((c = getopt_long(argc, argv, "hp:b:i:c:e:g:2:r:",
143
	                        longopts, NULL)) != -1) {
Thomas White's avatar
Thomas White committed
144

145
146
		char *test;

147
		switch (c) {
Thomas White's avatar
Thomas White committed
148
		case 'h' :
149
150
			show_help(argv[0]);
			return 0;
Thomas White's avatar
Thomas White committed
151

Thomas White's avatar
Thomas White committed
152
		case 'p' :
153
154
			peaks = strdup(optarg);
			break;
Thomas White's avatar
Thomas White committed
155

Thomas White's avatar
Thomas White committed
156
		case 'i' :
157
158
159
160
			boost = atoi(optarg);
			if ( boost < 1 ) {
				ERROR("Intensity boost must be a positive"
				      " integer.\n");
161
				return 1;
162
163
164
			}
			break;

Thomas White's avatar
Thomas White committed
165
		case 'b' :
166
			binning = atoi(optarg);
167
			if ( binning < 1 ) {
168
				ERROR("Binning must be a positive integer.\n");
169
				return 1;
170
171
172
			}
			break;

173
174
175
176
		case 'c' :
			cscale = strdup(optarg);
			break;

Thomas White's avatar
Thomas White committed
177
178
179
180
		case 'e' :
			element = strdup(optarg);
			break;

181
182
183
184
		case 'g' :
			geometry = strdup(optarg);
			break;

185
186
187
188
189
190
		case 2 :
			ring_size = strtod(optarg, &test);
			if ( test == optarg ) {
				ERROR("Ring size must be numerical.\n");
				return 1;
			}
191
			break;
Thomas White's avatar
Thomas White committed
192

193
194
195
196
197
198
		case 'r' :
			config_showrings = 1;
			reslist = strdup(optarg);
			int nchar = strlen(reslist);
			char thisvalue[128];
			int i;
Thomas White's avatar
Thomas White committed
199
			int j = 0;
200
201
			n_rings = 0;
			for ( i=0; i<=nchar; i++ ) {
Thomas White's avatar
Thomas White committed
202
203
204
				if ( ( reslist[i] != ',' )
				  && ( reslist[i] != '\0' ) )
				{
205
206
207
					thisvalue[j] = reslist[i];
					j++;
				} else {
Thomas White's avatar
Thomas White committed
208
					thisvalue[j] = '\0';
209
210
					ring_radii[n_rings] = atof(thisvalue);
					n_rings++;
Thomas White's avatar
Thomas White committed
211
					j = 0;
212
213
214
				}
			}
			break;
Thomas White's avatar
Thomas White committed
215

Thomas White's avatar
Thomas White committed
216
		case 0 :
217
			break;
Thomas White's avatar
Thomas White committed
218

Thomas White's avatar
Thomas White committed
219
		default :
220
221
			return 1;
		}
Thomas White's avatar
Thomas White committed
222
223
224

	}

225
226
227
228
229
230
231
	nfiles = argc-optind;

	if ( nfiles < 1 ) {
		ERROR("You need to give me a file to open!\n");
		return -1;
	}

232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
	if ( cscale == NULL ) cscale = strdup("colour");
	if ( strcmp(cscale, "mono") == 0 ) {
		colscale = SCALE_MONO;
	} else if ( strcmp(cscale, "invmono") == 0 ) {
		colscale = SCALE_INVMONO;
	} else if ( strcmp(cscale, "colour") == 0 ) {
		colscale = SCALE_COLOUR;
	} else if ( strcmp(cscale, "color") == 0 ) {
		colscale = SCALE_COLOUR;
	} else {
		ERROR("Unrecognised colour scale '%s'\n", cscale);
		return 1;
	}
	free(cscale);

247
	for ( i=0; i<nfiles; i++ ) {
248
		main_window_list[i] = displaywindow_open(argv[optind+i], peaks,
249
		                                         boost, binning,
250
		                                         config_cmfilter,
251
		                                         config_noisefilter,
252
		                                         colscale, element,
Thomas White's avatar
Thomas White committed
253
		                                         geometry,
254
		                                         config_showrings,
255
256
		                                         ring_radii,
		                                         n_rings,
257
		                                         ring_size);
258
259
260
261
262
263
		if ( main_window_list[i] == NULL ) {
			ERROR("Couldn't open display window\n");
		} else {
			main_n_windows++;
		}
	}
264
265

	if ( main_n_windows == 0 ) return 0;
Thomas White's avatar
Thomas White committed
266
267
268
269
	gtk_main();

	return 0;
}