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
|
/*
* im-sandbox.h
*
* Sandbox for indexing
*
* Copyright © 2012-2013 Deutsches Elektronen-Synchrotron DESY,
* a research centre of the Helmholtz Association.
* Copyright © 2012 Richard Kirian
* Copyright © 2012 Lorenzo Galli
*
* Authors:
* 2010-2013 Thomas White <taw@physics.org>
* 2011 Richard Kirian
* 2012 Lorenzo Galli
* 2012 Chunhong Yoon
*
* 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/>.
*
*/
#include "stream.h"
enum {
PEAK_ZAEF,
PEAK_HDF5,
};
/* Information about the indexing process which is common to all patterns */
struct index_args
{
UnitCell *cell;
int config_cmfilter;
int config_noisefilter;
int config_verbose;
int config_satcorr;
int config_closer;
int config_bgsub;
float threshold;
float min_gradient;
float min_snr;
double min_int_snr;
struct detector *det;
IndexingMethod *indm;
IndexingPrivate **ipriv;
int peaks; /* Peak detection method */
float tols[4];
struct beam_params *beam;
char *element;
char *hdf5_peak_path;
double ir_inn;
double ir_mid;
double ir_out;
struct copy_hdf5_field *copyme;
int integrate_saturated;
int use_saturated;
int no_revalidate;
int integrate_found;
int include_peaks;
int include_reflections;
int res_cutoff;
};
extern void create_sandbox(struct index_args *iargs, int n_proc, char *prefix,
int config_basename, FILE *fh,
char *use_this_one_instead, FILE *stream,
int argc, char *argv[]);
|
