diff options
Diffstat (limited to 'src/gui_index.c')
| -rw-r--r-- | src/gui_index.c | 118 |
1 files changed, 118 insertions, 0 deletions
diff --git a/src/gui_index.c b/src/gui_index.c index 7e9401a6..ebb0b54d 100644 --- a/src/gui_index.c +++ b/src/gui_index.c @@ -521,3 +521,121 @@ gint index_one_sig(GtkWidget *widget, struct crystfelproject *proj) return FALSE; } + + +static void add_arg(char **args, int pos, const char *label) +{ + args[pos] = strdup(label); +} + + +static void add_arg_float(char **args, int pos, const char *label, + float val) +{ + char *str = malloc(64); + if ( str == NULL ) return; + snprintf(str, 63, "--%s=%f", label, val); + args[pos] = str; +} + + +static void add_arg_int(char **args, int pos, const char *label, + int val) +{ + char *str = malloc(64); + if ( str == NULL ) return; + snprintf(str, 63, "--%s=%i", label, val); + args[pos] = str; +} + + +char **indexamajig_command_line(const char *geom_filename, + const char *n_thread_str, + struct peak_params *peak_search_params, + struct index_params *indexing_params) +{ + char **args; + char tols[2048]; + int n_args = 0; + + args = malloc(64*sizeof(char *)); + if ( args == NULL ) return NULL; + + /* The basics */ + add_arg(args, n_args++, "indexamajig"); + add_arg(args, n_args++, "-i"); + add_arg(args, n_args++, "files.lst"); + add_arg(args, n_args++, "-g"); + add_arg(args, n_args++, geom_filename); + add_arg(args, n_args++, "-o"); + add_arg(args, n_args++, "crystfel.stream"); + add_arg(args, n_args++, "-j"); + add_arg(args, n_args++, n_thread_str); + + /* Peak search */ + add_arg(args, n_args++, "--peaks"); + add_arg(args, n_args++, str_peaksearch(peak_search_params->method)); + + if ( peak_search_params->method == PEAK_ZAEF ) { + add_arg_float(args, n_args++, "threshold", + peak_search_params->threshold); + add_arg_float(args, n_args++, "min-squared-gradient", + peak_search_params->min_sq_gradient); + add_arg_float(args, n_args++, "min-snr", + peak_search_params->min_snr); + + } else if ( peak_search_params->method == PEAK_PEAKFINDER8 ) { + add_arg_float(args, n_args++, "threshold", + peak_search_params->threshold); + add_arg_float(args, n_args++, "min-snr", + peak_search_params->min_snr); + add_arg_int(args, n_args++, "min-pix-count", + peak_search_params->min_pix_count); + add_arg_int(args, n_args++, "max-pix-count", + peak_search_params->max_pix_count); + add_arg_int(args, n_args++, "local-bg-radius", + peak_search_params->local_bg_radius); + add_arg_int(args, n_args++, "min-res", + peak_search_params->min_res); + add_arg_int(args, n_args++, "max-res", + peak_search_params->max_res); + } + + if ( indexing_params->min_peaks > 0 ) { + add_arg_int(args, n_args++, "min-peaks", + indexing_params->min_peaks); + } + + /* Indexing */ + add_arg(args, n_args++, "--indexing"); + add_arg(args, n_args++, indexing_params->indexing_methods); + if ( indexing_params->cell_file != NULL ) { + add_arg(args, n_args++, "-p"); + add_arg(args, n_args++, indexing_params->cell_file); + } + snprintf(tols, 2048, "--tolerance=%f,%f,%f,%f,%f,%f", + indexing_params->tols[0], + indexing_params->tols[1], + indexing_params->tols[2], + indexing_params->tols[3], + indexing_params->tols[4], + indexing_params->tols[5]); + add_arg(args, n_args++, tols); + if ( indexing_params->multi ) add_arg(args, n_args++, "--multi"); + if ( indexing_params->no_refine ) add_arg(args, n_args++, "--no-refine"); + if ( indexing_params->no_retry ) add_arg(args, n_args++, "--no-retry"); + if ( indexing_params->no_peak_check ) add_arg(args, n_args++, "--no-peak-check"); + if ( indexing_params->no_cell_check ) add_arg(args, n_args++, "--no-cell-check"); + + /* Integration */ + add_arg(args, n_args++, "--integration"); + add_arg(args, n_args++, indexing_params->integration_method); + if ( indexing_params->overpredict ) args[n_args++] = "--overpredict"; + if ( !isinf(indexing_params->push_res) ) { + add_arg_float(args, n_args++, "push-res", + indexing_params->push_res); + } + + args[n_args] = NULL; + return args; +} |