+/*
+ File autogenerated by gengetopt version 2.22
+ generated with the following command:
+ /usr/local/bin/gengetopt --output-dir=/home/tbaudier/vv/vv_static/vv/vv_bin/segmentation --arg-struct-name=args_info_clitkRegionGrowing --func-name=cmdline_parser_clitkRegionGrowing --file-name=clitkRegionGrowing_ggo --unamed-opts --conf-parser --include-getopt
+
+ The developers of gengetopt consider the fixed text that goes in all
+ gengetopt output files to be in the public domain:
+ we make no copyright claims on it.
+*/
+
+/* If we use autoconf. */
+#ifdef HAVE_CONFIG_H
+#include "config.h"
+#endif
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+
+
+#include "clitkRegionGrowing_ggo.h"
+
+const char *args_info_clitkRegionGrowing_purpose = "Region growing from a seed point using various types of conditions to control \nthe growing";
+
+const char *args_info_clitkRegionGrowing_usage = "Usage: clitkRegionGrowing [OPTIONS]... [FILES]...";
+
+const char *args_info_clitkRegionGrowing_description = "";
+
+const char *args_info_clitkRegionGrowing_help[] = {
+ " -h, --help Print help and exit",
+ " -V, --version Print version and exit",
+ " --config=STRING Config file",
+ " -v, --verbose Verbose (default=off)",
+ "\nI/O:",
+ " -i, --input=STRING Input image filename",
+ " -o, --output=STRING Output image filename",
+ "\nParameters:",
+ " -t, --type=INT Region growing filter type: 0=threshold , \n 1=neighborhood-threshold , 2=confidence , 3= \n locally-adaptive-threshold, 4= \n explosion-controlled-threshold (default=`0')",
+ " -l, --lower=DOUBLE 1,2,3,4: Lower threshold value (default=`310')",
+ " -u, --upper=DOUBLE 1,2,3,4: Upper threshold value (default=`4000')",
+ " --maxUpper=DOUBLE 4: Maximum upper threshold value (default=`2000')",
+ " --minLower=DOUBLE 4: Minimum lower threshold value (default=`-1000')",
+ " --step=DOUBLE 4: Threshold step size (default=`64.0')",
+ " --minStep=DOUBLE 4: Minimum threshold step size (default=`1')",
+ " --adaptLower 3,4: (locally) adapt lower thresholding \n (default=off)",
+ " --adaptUpper 3,4: (locally) adapt upper thresholding \n (default=off)",
+ " -m, --multiplier=DOUBLE 2-4: (2-3) accept if within mean+-mutiplier*SD, (4) \n explosion if size increases multiplier times \n (default=`2.0')",
+ " -s, --seed=INT Seed index postion (in voxels) (default=`0')",
+ " --seedRadius=INT Radius used for seed dilatation(in voxel) \n (default=`0')",
+ " -p, --pad=DOUBLE The replace padding value (default=`1.0')",
+ " -r, --radius=INT 1-3: The radius of the neighborhood (default=`1')",
+ " --maxSD=DOUBLE 3: Limit to SD",
+ " --full 4: use full connectivity (not implemented yet) \n (default=off)",
+ " --iter=INT 2: Iterations (default=`5')",
+ 0
+};
+
+typedef enum {ARG_NO
+ , ARG_FLAG
+ , ARG_STRING
+ , ARG_INT
+ , ARG_DOUBLE
+} cmdline_parser_clitkRegionGrowing_arg_type;
+
+static
+void clear_given (struct args_info_clitkRegionGrowing *args_info);
+static
+void clear_args (struct args_info_clitkRegionGrowing *args_info);
+
+static int
+cmdline_parser_clitkRegionGrowing_internal (int argc, char * const *argv, struct args_info_clitkRegionGrowing *args_info,
+ struct cmdline_parser_clitkRegionGrowing_params *params, const char *additional_error);
+
+static int
+cmdline_parser_clitkRegionGrowing_required2 (struct args_info_clitkRegionGrowing *args_info, const char *prog_name, const char *additional_error);
+struct line_list
+{
+ char * string_arg;
+ struct line_list * next;
+};
+
+static struct line_list *cmd_line_list = 0;
+static struct line_list *cmd_line_list_tmp = 0;
+
+static void
+free_cmd_list(void)
+{
+ /* free the list of a previous call */
+ if (cmd_line_list)
+ {
+ while (cmd_line_list) {
+ cmd_line_list_tmp = cmd_line_list;
+ cmd_line_list = cmd_line_list->next;
+ free (cmd_line_list_tmp->string_arg);
+ free (cmd_line_list_tmp);
+ }
+ }
+}
+
+
+static char *
+gengetopt_strdup (const char *s);
+
+static
+void clear_given (struct args_info_clitkRegionGrowing *args_info)
+{
+ args_info->help_given = 0 ;
+ args_info->version_given = 0 ;
+ args_info->config_given = 0 ;
+ args_info->verbose_given = 0 ;
+ args_info->input_given = 0 ;
+ args_info->output_given = 0 ;
+ args_info->type_given = 0 ;
+ args_info->lower_given = 0 ;
+ args_info->upper_given = 0 ;
+ args_info->maxUpper_given = 0 ;
+ args_info->minLower_given = 0 ;
+ args_info->step_given = 0 ;
+ args_info->minStep_given = 0 ;
+ args_info->adaptLower_given = 0 ;
+ args_info->adaptUpper_given = 0 ;
+ args_info->multiplier_given = 0 ;
+ args_info->seed_given = 0 ;
+ args_info->seedRadius_given = 0 ;
+ args_info->pad_given = 0 ;
+ args_info->radius_given = 0 ;
+ args_info->maxSD_given = 0 ;
+ args_info->full_given = 0 ;
+ args_info->iter_given = 0 ;
+}
+
+static
+void clear_args (struct args_info_clitkRegionGrowing *args_info)
+{
+ args_info->config_arg = NULL;
+ args_info->config_orig = NULL;
+ args_info->verbose_flag = 0;
+ args_info->input_arg = NULL;
+ args_info->input_orig = NULL;
+ args_info->output_arg = NULL;
+ args_info->output_orig = NULL;
+ args_info->type_arg = 0;
+ args_info->type_orig = NULL;
+ args_info->lower_arg = 310;
+ args_info->lower_orig = NULL;
+ args_info->upper_arg = 4000;
+ args_info->upper_orig = NULL;
+ args_info->maxUpper_arg = 2000;
+ args_info->maxUpper_orig = NULL;
+ args_info->minLower_arg = -1000;
+ args_info->minLower_orig = NULL;
+ args_info->step_arg = 64.0;
+ args_info->step_orig = NULL;
+ args_info->minStep_arg = 1;
+ args_info->minStep_orig = NULL;
+ args_info->adaptLower_flag = 0;
+ args_info->adaptUpper_flag = 0;
+ args_info->multiplier_arg = 2.0;
+ args_info->multiplier_orig = NULL;
+ args_info->seed_arg = NULL;
+ args_info->seed_orig = NULL;
+ args_info->seedRadius_arg = NULL;
+ args_info->seedRadius_orig = NULL;
+ args_info->pad_arg = 1.0;
+ args_info->pad_orig = NULL;
+ args_info->radius_arg = NULL;
+ args_info->radius_orig = NULL;
+ args_info->maxSD_orig = NULL;
+ args_info->full_flag = 0;
+ args_info->iter_arg = 5;
+ args_info->iter_orig = NULL;
+
+}
+
+static
+void init_args_info(struct args_info_clitkRegionGrowing *args_info)
+{
+
+
+ args_info->help_help = args_info_clitkRegionGrowing_help[0] ;
+ args_info->version_help = args_info_clitkRegionGrowing_help[1] ;
+ args_info->config_help = args_info_clitkRegionGrowing_help[2] ;
+ args_info->verbose_help = args_info_clitkRegionGrowing_help[3] ;
+ args_info->input_help = args_info_clitkRegionGrowing_help[5] ;
+ args_info->output_help = args_info_clitkRegionGrowing_help[6] ;
+ args_info->type_help = args_info_clitkRegionGrowing_help[8] ;
+ args_info->lower_help = args_info_clitkRegionGrowing_help[9] ;
+ args_info->upper_help = args_info_clitkRegionGrowing_help[10] ;
+ args_info->maxUpper_help = args_info_clitkRegionGrowing_help[11] ;
+ args_info->minLower_help = args_info_clitkRegionGrowing_help[12] ;
+ args_info->step_help = args_info_clitkRegionGrowing_help[13] ;
+ args_info->minStep_help = args_info_clitkRegionGrowing_help[14] ;
+ args_info->adaptLower_help = args_info_clitkRegionGrowing_help[15] ;
+ args_info->adaptUpper_help = args_info_clitkRegionGrowing_help[16] ;
+ args_info->multiplier_help = args_info_clitkRegionGrowing_help[17] ;
+ args_info->seed_help = args_info_clitkRegionGrowing_help[18] ;
+ args_info->seed_min = -1;
+ args_info->seed_max = -1;
+ args_info->seedRadius_help = args_info_clitkRegionGrowing_help[19] ;
+ args_info->seedRadius_min = -1;
+ args_info->seedRadius_max = -1;
+ args_info->pad_help = args_info_clitkRegionGrowing_help[20] ;
+ args_info->radius_help = args_info_clitkRegionGrowing_help[21] ;
+ args_info->radius_min = -1;
+ args_info->radius_max = -1;
+ args_info->maxSD_help = args_info_clitkRegionGrowing_help[22] ;
+ args_info->full_help = args_info_clitkRegionGrowing_help[23] ;
+ args_info->iter_help = args_info_clitkRegionGrowing_help[24] ;
+
+}
+
+void
+cmdline_parser_clitkRegionGrowing_print_version (void)
+{
+ printf ("%s %s\n", CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, CMDLINE_PARSER_CLITKREGIONGROWING_VERSION);
+}
+
+static void print_help_common(void) {
+ cmdline_parser_clitkRegionGrowing_print_version ();
+
+ if (strlen(args_info_clitkRegionGrowing_purpose) > 0)
+ printf("\n%s\n", args_info_clitkRegionGrowing_purpose);
+
+ if (strlen(args_info_clitkRegionGrowing_usage) > 0)
+ printf("\n%s\n", args_info_clitkRegionGrowing_usage);
+
+ printf("\n");
+
+ if (strlen(args_info_clitkRegionGrowing_description) > 0)
+ printf("%s\n", args_info_clitkRegionGrowing_description);
+}
+
+void
+cmdline_parser_clitkRegionGrowing_print_help (void)
+{
+ int i = 0;
+ print_help_common();
+ while (args_info_clitkRegionGrowing_help[i])
+ printf("%s\n", args_info_clitkRegionGrowing_help[i++]);
+}
+
+void
+cmdline_parser_clitkRegionGrowing_init (struct args_info_clitkRegionGrowing *args_info)
+{
+ clear_given (args_info);
+ clear_args (args_info);
+ init_args_info (args_info);
+
+ args_info->inputs = NULL;
+ args_info->inputs_num = 0;
+}
+
+void
+cmdline_parser_clitkRegionGrowing_params_init(struct cmdline_parser_clitkRegionGrowing_params *params)
+{
+ if (params)
+ {
+ params->override = 0;
+ params->initialize = 1;
+ params->check_required = 1;
+ params->check_ambiguity = 0;
+ params->print_errors = 1;
+ }
+}
+
+struct cmdline_parser_clitkRegionGrowing_params *
+cmdline_parser_clitkRegionGrowing_params_create(void)
+{
+ struct cmdline_parser_clitkRegionGrowing_params *params =
+ (struct cmdline_parser_clitkRegionGrowing_params *)malloc(sizeof(struct cmdline_parser_clitkRegionGrowing_params));
+ cmdline_parser_clitkRegionGrowing_params_init(params);
+ return params;
+}
+
+static void
+free_string_field (char **s)
+{
+ if (*s)
+ {
+ free (*s);
+ *s = 0;
+ }
+}
+
+/** @brief generic value variable */
+union generic_value {
+ int int_arg;
+ double double_arg;
+ char *string_arg;
+};
+
+/** @brief holds temporary values for multiple options */
+struct generic_list
+{
+ union generic_value arg;
+ char *orig;
+ struct generic_list *next;
+};
+
+/**
+ * @brief add a node at the head of the list
+ */
+static void add_node(struct generic_list **list) {
+ struct generic_list *new_node = (struct generic_list *) malloc (sizeof (struct generic_list));
+ new_node->next = *list;
+ *list = new_node;
+ new_node->arg.string_arg = NULL;
+ new_node->orig = NULL;
+}
+
+static void
+free_multiple_field(unsigned int len, void **arg, char ***orig)
+{
+ unsigned int i;
+ if (*arg) {
+ for (i = 0; i < len; ++i)
+ {
+ free_string_field(&((*orig)[i]));
+ }
+
+ free (*arg);
+ *arg = 0;
+ free (*orig);
+ *orig = 0;
+ }
+}
+
+
+static void
+cmdline_parser_clitkRegionGrowing_release (struct args_info_clitkRegionGrowing *args_info)
+{
+ unsigned int i;
+ free_string_field (&(args_info->config_arg));
+ free_string_field (&(args_info->config_orig));
+ free_string_field (&(args_info->input_arg));
+ free_string_field (&(args_info->input_orig));
+ free_string_field (&(args_info->output_arg));
+ free_string_field (&(args_info->output_orig));
+ free_string_field (&(args_info->type_orig));
+ free_string_field (&(args_info->lower_orig));
+ free_string_field (&(args_info->upper_orig));
+ free_string_field (&(args_info->maxUpper_orig));
+ free_string_field (&(args_info->minLower_orig));
+ free_string_field (&(args_info->step_orig));
+ free_string_field (&(args_info->minStep_orig));
+ free_string_field (&(args_info->multiplier_orig));
+ free_multiple_field (args_info->seed_given, (void **)&(args_info->seed_arg), &(args_info->seed_orig));
+ free_multiple_field (args_info->seedRadius_given, (void **)&(args_info->seedRadius_arg), &(args_info->seedRadius_orig));
+ free_string_field (&(args_info->pad_orig));
+ free_multiple_field (args_info->radius_given, (void **)&(args_info->radius_arg), &(args_info->radius_orig));
+ free_string_field (&(args_info->maxSD_orig));
+ free_string_field (&(args_info->iter_orig));
+
+
+ for (i = 0; i < args_info->inputs_num; ++i)
+ free (args_info->inputs [i]);
+
+ if (args_info->inputs_num)
+ free (args_info->inputs);
+
+ clear_given (args_info);
+}
+
+
+static void
+write_into_file(FILE *outfile, const char *opt, const char *arg, char *values[])
+{
+ if (arg) {
+ fprintf(outfile, "%s=\"%s\"\n", opt, arg);
+ } else {
+ fprintf(outfile, "%s\n", opt);
+ }
+}
+
+static void
+write_multiple_into_file(FILE *outfile, int len, const char *opt, char **arg, char *values[])
+{
+ int i;
+
+ for (i = 0; i < len; ++i)
+ write_into_file(outfile, opt, (arg ? arg[i] : 0), values);
+}
+
+int
+cmdline_parser_clitkRegionGrowing_dump(FILE *outfile, struct args_info_clitkRegionGrowing *args_info)
+{
+ int i = 0;
+
+ if (!outfile)
+ {
+ fprintf (stderr, "%s: cannot dump options to stream\n", CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE);
+ return EXIT_FAILURE;
+ }
+
+ if (args_info->help_given)
+ write_into_file(outfile, "help", 0, 0 );
+ if (args_info->version_given)
+ write_into_file(outfile, "version", 0, 0 );
+ if (args_info->config_given)
+ write_into_file(outfile, "config", args_info->config_orig, 0);
+ if (args_info->verbose_given)
+ write_into_file(outfile, "verbose", 0, 0 );
+ if (args_info->input_given)
+ write_into_file(outfile, "input", args_info->input_orig, 0);
+ if (args_info->output_given)
+ write_into_file(outfile, "output", args_info->output_orig, 0);
+ if (args_info->type_given)
+ write_into_file(outfile, "type", args_info->type_orig, 0);
+ if (args_info->lower_given)
+ write_into_file(outfile, "lower", args_info->lower_orig, 0);
+ if (args_info->upper_given)
+ write_into_file(outfile, "upper", args_info->upper_orig, 0);
+ if (args_info->maxUpper_given)
+ write_into_file(outfile, "maxUpper", args_info->maxUpper_orig, 0);
+ if (args_info->minLower_given)
+ write_into_file(outfile, "minLower", args_info->minLower_orig, 0);
+ if (args_info->step_given)
+ write_into_file(outfile, "step", args_info->step_orig, 0);
+ if (args_info->minStep_given)
+ write_into_file(outfile, "minStep", args_info->minStep_orig, 0);
+ if (args_info->adaptLower_given)
+ write_into_file(outfile, "adaptLower", 0, 0 );
+ if (args_info->adaptUpper_given)
+ write_into_file(outfile, "adaptUpper", 0, 0 );
+ if (args_info->multiplier_given)
+ write_into_file(outfile, "multiplier", args_info->multiplier_orig, 0);
+ write_multiple_into_file(outfile, args_info->seed_given, "seed", args_info->seed_orig, 0);
+ write_multiple_into_file(outfile, args_info->seedRadius_given, "seedRadius", args_info->seedRadius_orig, 0);
+ if (args_info->pad_given)
+ write_into_file(outfile, "pad", args_info->pad_orig, 0);
+ write_multiple_into_file(outfile, args_info->radius_given, "radius", args_info->radius_orig, 0);
+ if (args_info->maxSD_given)
+ write_into_file(outfile, "maxSD", args_info->maxSD_orig, 0);
+ if (args_info->full_given)
+ write_into_file(outfile, "full", 0, 0 );
+ if (args_info->iter_given)
+ write_into_file(outfile, "iter", args_info->iter_orig, 0);
+
+
+ i = EXIT_SUCCESS;
+ return i;
+}
+
+int
+cmdline_parser_clitkRegionGrowing_file_save(const char *filename, struct args_info_clitkRegionGrowing *args_info)
+{
+ FILE *outfile;
+ int i = 0;
+
+ outfile = fopen(filename, "w");
+
+ if (!outfile)
+ {
+ fprintf (stderr, "%s: cannot open file for writing: %s\n", CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, filename);
+ return EXIT_FAILURE;
+ }
+
+ i = cmdline_parser_clitkRegionGrowing_dump(outfile, args_info);
+ fclose (outfile);
+
+ return i;
+}
+
+void
+cmdline_parser_clitkRegionGrowing_free (struct args_info_clitkRegionGrowing *args_info)
+{
+ cmdline_parser_clitkRegionGrowing_release (args_info);
+}
+
+/** @brief replacement of strdup, which is not standard */
+char *
+gengetopt_strdup (const char *s)
+{
+ char *result = NULL;
+ if (!s)
+ return result;
+
+ result = (char*)malloc(strlen(s) + 1);
+ if (result == (char*)0)
+ return (char*)0;
+ strcpy(result, s);
+ return result;
+}
+
+static char *
+get_multiple_arg_token(const char *arg)
+{
+ char *tok, *ret;
+ size_t len, num_of_escape, i, j;
+
+ if (!arg)
+ return NULL;
+
+ tok = strchr (arg, ',');
+ num_of_escape = 0;
+
+ /* make sure it is not escaped */
+ while (tok)
+ {
+ if (*(tok-1) == '\\')
+ {
+ /* find the next one */
+ tok = strchr (tok+1, ',');
+ ++num_of_escape;
+ }
+ else
+ break;
+ }
+
+ if (tok)
+ len = (size_t)(tok - arg + 1);
+ else
+ len = strlen (arg) + 1;
+
+ len -= num_of_escape;
+
+ ret = (char *) malloc (len);
+
+ i = 0;
+ j = 0;
+ while (arg[i] && (j < len-1))
+ {
+ if (arg[i] == '\\' &&
+ arg[ i + 1 ] &&
+ arg[ i + 1 ] == ',')
+ ++i;
+
+ ret[j++] = arg[i++];
+ }
+
+ ret[len-1] = '\0';
+
+ return ret;
+}
+
+static char *
+get_multiple_arg_token_next(const char *arg)
+{
+ char *tok;
+
+ if (!arg)
+ return NULL;
+
+ tok = strchr (arg, ',');
+
+ /* make sure it is not escaped */
+ while (tok)
+ {
+ if (*(tok-1) == '\\')
+ {
+ /* find the next one */
+ tok = strchr (tok+1, ',');
+ }
+ else
+ break;
+ }
+
+ if (! tok || strlen(tok) == 1)
+ return 0;
+
+ return tok+1;
+}
+
+static int
+check_multiple_option_occurrences(const char *prog_name, unsigned int option_given, int min, int max, const char *option_desc);
+
+int
+check_multiple_option_occurrences(const char *prog_name, unsigned int option_given, int min, int max, const char *option_desc)
+{
+ int error = 0;
+
+ if (option_given && ! (min < 0 && max < 0))
+ {
+ if (min >= 0 && max >= 0)
+ {
+ if (min == max)
+ {
+ /* specific occurrences */
+ if (option_given != min)
+ {
+ fprintf (stderr, "%s: %s option occurrences must be %d\n",
+ prog_name, option_desc, min);
+ error = 1;
+ }
+ }
+ else if (option_given < min
+ || option_given > max)
+ {
+ /* range occurrences */
+ fprintf (stderr, "%s: %s option occurrences must be between %d and %d\n",
+ prog_name, option_desc, min, max);
+ error = 1;
+ }
+ }
+ else if (min >= 0)
+ {
+ /* at least check */
+ if (option_given < min)
+ {
+ fprintf (stderr, "%s: %s option occurrences must be at least %d\n",
+ prog_name, option_desc, min);
+ error = 1;
+ }
+ }
+ else if (max >= 0)
+ {
+ /* at most check */
+ if (option_given > max)
+ {
+ fprintf (stderr, "%s: %s option occurrences must be at most %d\n",
+ prog_name, option_desc, max);
+ error = 1;
+ }
+ }
+ }
+
+ return error;
+}
+int
+cmdline_parser_clitkRegionGrowing (int argc, char * const *argv, struct args_info_clitkRegionGrowing *args_info)
+{
+ return cmdline_parser_clitkRegionGrowing2 (argc, argv, args_info, 0, 1, 1);
+}
+
+int
+cmdline_parser_clitkRegionGrowing_ext (int argc, char * const *argv, struct args_info_clitkRegionGrowing *args_info,
+ struct cmdline_parser_clitkRegionGrowing_params *params)
+{
+ int result;
+ result = cmdline_parser_clitkRegionGrowing_internal (argc, argv, args_info, params, NULL);
+
+ if (result == EXIT_FAILURE)
+ {
+ cmdline_parser_clitkRegionGrowing_free (args_info);
+ exit (EXIT_FAILURE);
+ }
+
+ return result;
+}
+
+int
+cmdline_parser_clitkRegionGrowing2 (int argc, char * const *argv, struct args_info_clitkRegionGrowing *args_info, int override, int initialize, int check_required)
+{
+ int result;
+ struct cmdline_parser_clitkRegionGrowing_params params;
+
+ params.override = override;
+ params.initialize = initialize;
+ params.check_required = check_required;
+ params.check_ambiguity = 0;
+ params.print_errors = 1;
+
+ result = cmdline_parser_clitkRegionGrowing_internal (argc, argv, args_info, ¶ms, NULL);
+
+ if (result == EXIT_FAILURE)
+ {
+ cmdline_parser_clitkRegionGrowing_free (args_info);
+ exit (EXIT_FAILURE);
+ }
+
+ return result;
+}
+
+int
+cmdline_parser_clitkRegionGrowing_required (struct args_info_clitkRegionGrowing *args_info, const char *prog_name)
+{
+ int result = EXIT_SUCCESS;
+
+ if (cmdline_parser_clitkRegionGrowing_required2(args_info, prog_name, NULL) > 0)
+ result = EXIT_FAILURE;
+
+ if (result == EXIT_FAILURE)
+ {
+ cmdline_parser_clitkRegionGrowing_free (args_info);
+ exit (EXIT_FAILURE);
+ }
+
+ return result;
+}
+
+int
+cmdline_parser_clitkRegionGrowing_required2 (struct args_info_clitkRegionGrowing *args_info, const char *prog_name, const char *additional_error)
+{
+ int error = 0;
+
+ /* checks for required options */
+ if (! args_info->input_given)
+ {
+ fprintf (stderr, "%s: '--input' ('-i') option required%s\n", prog_name, (additional_error ? additional_error : ""));
+ error = 1;
+ }
+
+ if (! args_info->output_given)
+ {
+ fprintf (stderr, "%s: '--output' ('-o') option required%s\n", prog_name, (additional_error ? additional_error : ""));
+ error = 1;
+ }
+
+ if (check_multiple_option_occurrences(prog_name, args_info->seed_given, args_info->seed_min, args_info->seed_max, "'--seed' ('-s')"))
+ error = 1;
+
+ if (check_multiple_option_occurrences(prog_name, args_info->seedRadius_given, args_info->seedRadius_min, args_info->seedRadius_max, "'--seedRadius'"))
+ error = 1;
+
+ if (check_multiple_option_occurrences(prog_name, args_info->radius_given, args_info->radius_min, args_info->radius_max, "'--radius' ('-r')"))
+ error = 1;
+
+
+ /* checks for dependences among options */
+
+ return error;
+}
+
+/*
+ * Extracted from the glibc source tree, version 2.3.6
+ *
+ * Licensed under the GPL as per the whole glibc source tree.
+ *
+ * This file was modified so that getopt_long can be called
+ * many times without risking previous memory to be spoiled.
+ *
+ * Modified by Andre Noll and Lorenzo Bettini for use in
+ * GNU gengetopt generated files.
+ *
+ */
+
+/*
+ * we must include anything we need since this file is not thought to be
+ * inserted in a file already using getopt.h
+ *
+ * Lorenzo
+ */
+
+struct option
+{
+ const char *name;
+ /* has_arg can't be an enum because some compilers complain about
+ type mismatches in all the code that assumes it is an int. */
+ int has_arg;
+ int *flag;
+ int val;
+};
+
+/* For communication from `getopt' to the caller.
+ When `getopt' finds an option that takes an argument,
+ the argument value is returned here.
+ Also, when `ordering' is RETURN_IN_ORDER,
+ each non-option ARGV-element is returned here. */
+
+static char *optarg;
+
+/* Index in ARGV of the next element to be scanned.
+ This is used for communication to and from the caller
+ and for communication between successive calls to `getopt'.
+
+ On entry to `getopt', zero means this is the first call; initialize.
+
+ When `getopt' returns -1, this is the index of the first of the
+ non-option elements that the caller should itself scan.
+
+ Otherwise, `optind' communicates from one call to the next
+ how much of ARGV has been scanned so far. */
+
+static int optind;
+
+/* Callers store zero here to inhibit the error message `getopt' prints
+ for unrecognized options. */
+
+static int opterr;
+
+/* Set to an option character which was unrecognized. */
+
+static int optopt;
+
+/* This version of `getopt' appears to the caller like standard Unix `getopt'
+ but it behaves differently for the user, since it allows the user
+ to intersperse the options with the other arguments.
+
+ As `getopt' works, it permutes the elements of ARGV so that,
+ when it is done, all the options precede everything else. Thus
+ all application programs are extended to handle flexible argument order.
+*/
+/*
+ If the field `flag' is not NULL, it points to a variable that is set
+ to the value given in the field `val' when the option is found, but
+ left unchanged if the option is not found.
+
+ To have a long-named option do something other than set an `int' to
+ a compiled-in constant, such as set a value from `custom_optarg', set the
+ option's `flag' field to zero and its `val' field to a nonzero
+ value (the equivalent single-letter option character, if there is
+ one). For long options that have a zero `flag' field, `getopt'
+ returns the contents of the `val' field. */
+
+/* Names for the values of the `has_arg' field of `struct option'. */
+#ifndef no_argument
+#define no_argument 0
+#endif
+
+#ifndef required_argument
+#define required_argument 1
+#endif
+
+#ifndef optional_argument
+#define optional_argument 2
+#endif
+
+struct custom_getopt_data {
+ /*
+ * These have exactly the same meaning as the corresponding global variables,
+ * except that they are used for the reentrant versions of getopt.
+ */
+ int custom_optind;
+ int custom_opterr;
+ int custom_optopt;
+ char *custom_optarg;
+
+ /* True if the internal members have been initialized. */
+ int initialized;
+
+ /*
+ * The next char to be scanned in the option-element in which the last option
+ * character we returned was found. This allows us to pick up the scan where
+ * we left off. If this is zero, or a null string, it means resume the scan by
+ * advancing to the next ARGV-element.
+ */
+ char *nextchar;
+
+ /*
+ * Describe the part of ARGV that contains non-options that have been skipped.
+ * `first_nonopt' is the index in ARGV of the first of them; `last_nonopt' is
+ * the index after the last of them.
+ */
+ int first_nonopt;
+ int last_nonopt;
+};
+
+/*
+ * the variables optarg, optind, opterr and optopt are renamed with
+ * the custom_ prefix so that they don't interfere with getopt ones.
+ *
+ * Moreover they're static so they are visible only from within the
+ * file where this very file will be included.
+ */
+
+/*
+ * For communication from `custom_getopt' to the caller. When `custom_getopt' finds an
+ * option that takes an argument, the argument value is returned here.
+ */
+static char *custom_optarg;
+
+/*
+ * Index in ARGV of the next element to be scanned. This is used for
+ * communication to and from the caller and for communication between
+ * successive calls to `custom_getopt'.
+ *
+ * On entry to `custom_getopt', 1 means this is the first call; initialize.
+ *
+ * When `custom_getopt' returns -1, this is the index of the first of the non-option
+ * elements that the caller should itself scan.
+ *
+ * Otherwise, `custom_optind' communicates from one call to the next how much of ARGV
+ * has been scanned so far.
+ *
+ * 1003.2 says this must be 1 before any call.
+ */
+static int custom_optind = 1;
+
+/*
+ * Callers store zero here to inhibit the error message for unrecognized
+ * options.
+ */
+static int custom_opterr = 1;
+
+/*
+ * Set to an option character which was unrecognized. This must be initialized
+ * on some systems to avoid linking in the system's own getopt implementation.
+ */
+static int custom_optopt = '?';
+
+/*
+ * Exchange two adjacent subsequences of ARGV. One subsequence is elements
+ * [first_nonopt,last_nonopt) which contains all the non-options that have been
+ * skipped so far. The other is elements [last_nonopt,custom_optind), which contains
+ * all the options processed since those non-options were skipped.
+ * `first_nonopt' and `last_nonopt' are relocated so that they describe the new
+ * indices of the non-options in ARGV after they are moved.
+ */
+static void exchange(char **argv, struct custom_getopt_data *d)
+{
+ int bottom = d->first_nonopt;
+ int middle = d->last_nonopt;
+ int top = d->custom_optind;
+ char *tem;
+
+ /*
+ * Exchange the shorter segment with the far end of the longer segment.
+ * That puts the shorter segment into the right place. It leaves the
+ * longer segment in the right place overall, but it consists of two
+ * parts that need to be swapped next.
+ */
+ while (top > middle && middle > bottom) {
+ if (top - middle > middle - bottom) {
+ /* Bottom segment is the short one. */
+ int len = middle - bottom;
+ int i;
+
+ /* Swap it with the top part of the top segment. */
+ for (i = 0; i < len; i++) {
+ tem = argv[bottom + i];
+ argv[bottom + i] =
+ argv[top - (middle - bottom) + i];
+ argv[top - (middle - bottom) + i] = tem;
+ }
+ /* Exclude the moved bottom segment from further swapping. */
+ top -= len;
+ } else {
+ /* Top segment is the short one. */
+ int len = top - middle;
+ int i;
+
+ /* Swap it with the bottom part of the bottom segment. */
+ for (i = 0; i < len; i++) {
+ tem = argv[bottom + i];
+ argv[bottom + i] = argv[middle + i];
+ argv[middle + i] = tem;
+ }
+ /* Exclude the moved top segment from further swapping. */
+ bottom += len;
+ }
+ }
+ /* Update records for the slots the non-options now occupy. */
+ d->first_nonopt += (d->custom_optind - d->last_nonopt);
+ d->last_nonopt = d->custom_optind;
+}
+
+/* Initialize the internal data when the first call is made. */
+static void custom_getopt_initialize(struct custom_getopt_data *d)
+{
+ /*
+ * Start processing options with ARGV-element 1 (since ARGV-element 0
+ * is the program name); the sequence of previously skipped non-option
+ * ARGV-elements is empty.
+ */
+ d->first_nonopt = d->last_nonopt = d->custom_optind;
+ d->nextchar = NULL;
+ d->initialized = 1;
+}
+
+#define NONOPTION_P (argv[d->custom_optind][0] != '-' || argv[d->custom_optind][1] == '\0')
+
+/* return: zero: continue, nonzero: return given value to user */
+static int shuffle_argv(int argc, char *const *argv,const struct option *longopts,
+ struct custom_getopt_data *d)
+{
+ /*
+ * Give FIRST_NONOPT & LAST_NONOPT rational values if CUSTOM_OPTIND has been
+ * moved back by the user (who may also have changed the arguments).
+ */
+ if (d->last_nonopt > d->custom_optind)
+ d->last_nonopt = d->custom_optind;
+ if (d->first_nonopt > d->custom_optind)
+ d->first_nonopt = d->custom_optind;
+ /*
+ * If we have just processed some options following some
+ * non-options, exchange them so that the options come first.
+ */
+ if (d->first_nonopt != d->last_nonopt &&
+ d->last_nonopt != d->custom_optind)
+ exchange((char **) argv, d);
+ else if (d->last_nonopt != d->custom_optind)
+ d->first_nonopt = d->custom_optind;
+ /*
+ * Skip any additional non-options and extend the range of
+ * non-options previously skipped.
+ */
+ while (d->custom_optind < argc && NONOPTION_P)
+ d->custom_optind++;
+ d->last_nonopt = d->custom_optind;
+ /*
+ * The special ARGV-element `--' means premature end of options. Skip
+ * it like a null option, then exchange with previous non-options as if
+ * it were an option, then skip everything else like a non-option.
+ */
+ if (d->custom_optind != argc && !strcmp(argv[d->custom_optind], "--")) {
+ d->custom_optind++;
+ if (d->first_nonopt != d->last_nonopt
+ && d->last_nonopt != d->custom_optind)
+ exchange((char **) argv, d);
+ else if (d->first_nonopt == d->last_nonopt)
+ d->first_nonopt = d->custom_optind;
+ d->last_nonopt = argc;
+ d->custom_optind = argc;
+ }
+ /*
+ * If we have done all the ARGV-elements, stop the scan and back over
+ * any non-options that we skipped and permuted.
+ */
+ if (d->custom_optind == argc) {
+ /*
+ * Set the next-arg-index to point at the non-options that we
+ * previously skipped, so the caller will digest them.
+ */
+ if (d->first_nonopt != d->last_nonopt)
+ d->custom_optind = d->first_nonopt;
+ return -1;
+ }
+ /*
+ * If we have come to a non-option and did not permute it, either stop
+ * the scan or describe it to the caller and pass it by.
+ */
+ if (NONOPTION_P) {
+ d->custom_optarg = argv[d->custom_optind++];
+ return 1;
+ }
+ /*
+ * We have found another option-ARGV-element. Skip the initial
+ * punctuation.
+ */
+ d->nextchar = (argv[d->custom_optind] + 1 + (longopts != NULL && argv[d->custom_optind][1] == '-'));
+ return 0;
+}
+
+/*
+ * Check whether the ARGV-element is a long option.
+ *
+ * If there's a long option "fubar" and the ARGV-element is "-fu", consider
+ * that an abbreviation of the long option, just like "--fu", and not "-f" with
+ * arg "u".
+ *
+ * This distinction seems to be the most useful approach.
+ *
+ */
+static int check_long_opt(int argc, char *const *argv, const char *optstring,
+ const struct option *longopts, int *longind,
+ int print_errors, struct custom_getopt_data *d)
+{
+ char *nameend;
+ const struct option *p;
+ const struct option *pfound = NULL;
+ int exact = 0;
+ int ambig = 0;
+ int indfound = -1;
+ int option_index;
+
+ for (nameend = d->nextchar; *nameend && *nameend != '='; nameend++)
+ /* Do nothing. */ ;
+
+ /* Test all long options for either exact match or abbreviated matches */
+ for (p = longopts, option_index = 0; p->name; p++, option_index++)
+ if (!strncmp(p->name, d->nextchar, nameend - d->nextchar)) {
+ if ((unsigned int) (nameend - d->nextchar)
+ == (unsigned int) strlen(p->name)) {
+ /* Exact match found. */
+ pfound = p;
+ indfound = option_index;
+ exact = 1;
+ break;
+ } else if (pfound == NULL) {
+ /* First nonexact match found. */
+ pfound = p;
+ indfound = option_index;
+ } else if (pfound->has_arg != p->has_arg
+ || pfound->flag != p->flag
+ || pfound->val != p->val)
+ /* Second or later nonexact match found. */
+ ambig = 1;
+ }
+ if (ambig && !exact) {
+ if (print_errors) {
+ fprintf(stderr,
+ "%s: option `%s' is ambiguous\n",
+ argv[0], argv[d->custom_optind]);
+ }
+ d->nextchar += strlen(d->nextchar);
+ d->custom_optind++;
+ d->custom_optopt = 0;
+ return '?';
+ }
+ if (pfound) {
+ option_index = indfound;
+ d->custom_optind++;
+ if (*nameend) {
+ if (pfound->has_arg != no_argument)
+ d->custom_optarg = nameend + 1;
+ else {
+ if (print_errors) {
+ if (argv[d->custom_optind - 1][1] == '-') {
+ /* --option */
+ fprintf(stderr, "%s: option `--%s' doesn't allow an argument\n",
+ argv[0], pfound->name);
+ } else {
+ /* +option or -option */
+ fprintf(stderr, "%s: option `%c%s' doesn't allow an argument\n",
+ argv[0], argv[d->custom_optind - 1][0], pfound->name);
+ }
+
+ }
+ d->nextchar += strlen(d->nextchar);
+ d->custom_optopt = pfound->val;
+ return '?';
+ }
+ } else if (pfound->has_arg == required_argument) {
+ if (d->custom_optind < argc)
+ d->custom_optarg = argv[d->custom_optind++];
+ else {
+ if (print_errors) {
+ fprintf(stderr,
+ "%s: option `%s' requires an argument\n",
+ argv[0],
+ argv[d->custom_optind - 1]);
+ }
+ d->nextchar += strlen(d->nextchar);
+ d->custom_optopt = pfound->val;
+ return optstring[0] == ':' ? ':' : '?';
+ }
+ }
+ d->nextchar += strlen(d->nextchar);
+ if (longind != NULL)
+ *longind = option_index;
+ if (pfound->flag) {
+ *(pfound->flag) = pfound->val;
+ return 0;
+ }
+ return pfound->val;
+ }
+ /*
+ * Can't find it as a long option. If this is not getopt_long_only, or
+ * the option starts with '--' or is not a valid short option, then
+ * it's an error. Otherwise interpret it as a short option.
+ */
+ if (print_errors) {
+ if (argv[d->custom_optind][1] == '-') {
+ /* --option */
+ fprintf(stderr,
+ "%s: unrecognized option `--%s'\n",
+ argv[0], d->nextchar);
+ } else {
+ /* +option or -option */
+ fprintf(stderr,
+ "%s: unrecognized option `%c%s'\n",
+ argv[0], argv[d->custom_optind][0],
+ d->nextchar);
+ }
+ }
+ d->nextchar = (char *) "";
+ d->custom_optind++;
+ d->custom_optopt = 0;
+ return '?';
+}
+
+static int check_short_opt(int argc, char *const *argv, const char *optstring,
+ int print_errors, struct custom_getopt_data *d)
+{
+ char c = *d->nextchar++;
+ char *temp = strchr(optstring, c);
+
+ /* Increment `custom_optind' when we start to process its last character. */
+ if (*d->nextchar == '\0')
+ ++d->custom_optind;
+ if (!temp || c == ':') {
+ if (print_errors)
+ fprintf(stderr, "%s: invalid option -- %c\n", argv[0], c);
+
+ d->custom_optopt = c;
+ return '?';
+ }
+ if (temp[1] == ':') {
+ if (temp[2] == ':') {
+ /* This is an option that accepts an argument optionally. */
+ if (*d->nextchar != '\0') {
+ d->custom_optarg = d->nextchar;
+ d->custom_optind++;
+ } else
+ d->custom_optarg = NULL;
+ d->nextchar = NULL;
+ } else {
+ /* This is an option that requires an argument. */
+ if (*d->nextchar != '\0') {
+ d->custom_optarg = d->nextchar;
+ /*
+ * If we end this ARGV-element by taking the
+ * rest as an arg, we must advance to the next
+ * element now.
+ */
+ d->custom_optind++;
+ } else if (d->custom_optind == argc) {
+ if (print_errors) {
+ fprintf(stderr,
+ "%s: option requires an argument -- %c\n",
+ argv[0], c);
+ }
+ d->custom_optopt = c;
+ if (optstring[0] == ':')
+ c = ':';
+ else
+ c = '?';
+ } else
+ /*
+ * We already incremented `custom_optind' once;
+ * increment it again when taking next ARGV-elt
+ * as argument.
+ */
+ d->custom_optarg = argv[d->custom_optind++];
+ d->nextchar = NULL;
+ }
+ }
+ return c;
+}
+
+/*
+ * Scan elements of ARGV for option characters given in OPTSTRING.
+ *
+ * If an element of ARGV starts with '-', and is not exactly "-" or "--",
+ * then it is an option element. The characters of this element
+ * (aside from the initial '-') are option characters. If `getopt'
+ * is called repeatedly, it returns successively each of the option characters
+ * from each of the option elements.
+ *
+ * If `getopt' finds another option character, it returns that character,
+ * updating `custom_optind' and `nextchar' so that the next call to `getopt' can
+ * resume the scan with the following option character or ARGV-element.
+ *
+ * If there are no more option characters, `getopt' returns -1.
+ * Then `custom_optind' is the index in ARGV of the first ARGV-element
+ * that is not an option. (The ARGV-elements have been permuted
+ * so that those that are not options now come last.)
+ *
+ * OPTSTRING is a string containing the legitimate option characters.
+ * If an option character is seen that is not listed in OPTSTRING,
+ * return '?' after printing an error message. If you set `custom_opterr' to
+ * zero, the error message is suppressed but we still return '?'.
+ *
+ * If a char in OPTSTRING is followed by a colon, that means it wants an arg,
+ * so the following text in the same ARGV-element, or the text of the following
+ * ARGV-element, is returned in `custom_optarg'. Two colons mean an option that
+ * wants an optional arg; if there is text in the current ARGV-element,
+ * it is returned in `custom_optarg', otherwise `custom_optarg' is set to zero.
+ *
+ * If OPTSTRING starts with `-' or `+', it requests different methods of
+ * handling the non-option ARGV-elements.
+ * See the comments about RETURN_IN_ORDER and REQUIRE_ORDER, above.
+ *
+ * Long-named options begin with `--' instead of `-'.
+ * Their names may be abbreviated as long as the abbreviation is unique
+ * or is an exact match for some defined option. If they have an
+ * argument, it follows the option name in the same ARGV-element, separated
+ * from the option name by a `=', or else the in next ARGV-element.
+ * When `getopt' finds a long-named option, it returns 0 if that option's
+ * `flag' field is nonzero, the value of the option's `val' field
+ * if the `flag' field is zero.
+ *
+ * The elements of ARGV aren't really const, because we permute them.
+ * But we pretend they're const in the prototype to be compatible
+ * with other systems.
+ *
+ * LONGOPTS is a vector of `struct option' terminated by an
+ * element containing a name which is zero.
+ *
+ * LONGIND returns the index in LONGOPT of the long-named option found.
+ * It is only valid when a long-named option has been found by the most
+ * recent call.
+ *
+ * Return the option character from OPTS just read. Return -1 when there are
+ * no more options. For unrecognized options, or options missing arguments,
+ * `custom_optopt' is set to the option letter, and '?' is returned.
+ *
+ * The OPTS string is a list of characters which are recognized option letters,
+ * optionally followed by colons, specifying that that letter takes an
+ * argument, to be placed in `custom_optarg'.
+ *
+ * If a letter in OPTS is followed by two colons, its argument is optional.
+ * This behavior is specific to the GNU `getopt'.
+ *
+ * The argument `--' causes premature termination of argument scanning,
+ * explicitly telling `getopt' that there are no more options. If OPTS begins
+ * with `--', then non-option arguments are treated as arguments to the option
+ * '\0'. This behavior is specific to the GNU `getopt'.
+ */
+
+static int getopt_internal_r(int argc, char *const *argv, const char *optstring,
+ const struct option *longopts, int *longind,
+ struct custom_getopt_data *d)
+{
+ int ret, print_errors = d->custom_opterr;
+
+ if (optstring[0] == ':')
+ print_errors = 0;
+ if (argc < 1)
+ return -1;
+ d->custom_optarg = NULL;
+
+ /*
+ * This is a big difference with GNU getopt, since optind == 0
+ * means initialization while here 1 means first call.
+ */
+ if (d->custom_optind == 0 || !d->initialized) {
+ if (d->custom_optind == 0)
+ d->custom_optind = 1; /* Don't scan ARGV[0], the program name. */
+ custom_getopt_initialize(d);
+ }
+ if (d->nextchar == NULL || *d->nextchar == '\0') {
+ ret = shuffle_argv(argc, argv, longopts, d);
+ if (ret)
+ return ret;
+ }
+ if (longopts && (argv[d->custom_optind][1] == '-' ))
+ return check_long_opt(argc, argv, optstring, longopts,
+ longind, print_errors, d);
+ return check_short_opt(argc, argv, optstring, print_errors, d);
+}
+
+static int custom_getopt_internal(int argc, char *const *argv, const char *optstring,
+ const struct option *longopts, int *longind)
+{
+ int result;
+ /* Keep a global copy of all internal members of d */
+ static struct custom_getopt_data d;
+
+ d.custom_optind = custom_optind;
+ d.custom_opterr = custom_opterr;
+ result = getopt_internal_r(argc, argv, optstring, longopts,
+ longind, &d);
+ custom_optind = d.custom_optind;
+ custom_optarg = d.custom_optarg;
+ custom_optopt = d.custom_optopt;
+ return result;
+}
+
+static int custom_getopt_long (int argc, char *const *argv, const char *options,
+ const struct option *long_options, int *opt_index)
+{
+ return custom_getopt_internal(argc, argv, options, long_options,
+ opt_index);
+}
+
+
+static char *package_name = 0;
+
+/**
+ * @brief updates an option
+ * @param field the generic pointer to the field to update
+ * @param orig_field the pointer to the orig field
+ * @param field_given the pointer to the number of occurrence of this option
+ * @param prev_given the pointer to the number of occurrence already seen
+ * @param value the argument for this option (if null no arg was specified)
+ * @param possible_values the possible values for this option (if specified)
+ * @param default_value the default value (in case the option only accepts fixed values)
+ * @param arg_type the type of this option
+ * @param check_ambiguity @see cmdline_parser_clitkRegionGrowing_params.check_ambiguity
+ * @param override @see cmdline_parser_clitkRegionGrowing_params.override
+ * @param no_free whether to free a possible previous value
+ * @param multiple_option whether this is a multiple option
+ * @param long_opt the corresponding long option
+ * @param short_opt the corresponding short option (or '-' if none)
+ * @param additional_error possible further error specification
+ */
+static
+int update_arg(void *field, char **orig_field,
+ unsigned int *field_given, unsigned int *prev_given,
+ char *value, char *possible_values[], const char *default_value,
+ cmdline_parser_clitkRegionGrowing_arg_type arg_type,
+ int check_ambiguity, int override,
+ int no_free, int multiple_option,
+ const char *long_opt, char short_opt,
+ const char *additional_error)
+{
+ char *stop_char = 0;
+ const char *val = value;
+ int found;
+ char **string_field;
+
+ stop_char = 0;
+ found = 0;
+
+ if (!multiple_option && prev_given && (*prev_given || (check_ambiguity && *field_given)))
+ {
+ if (short_opt != '-')
+ fprintf (stderr, "%s: `--%s' (`-%c') option given more than once%s\n",
+ package_name, long_opt, short_opt,
+ (additional_error ? additional_error : ""));
+ else
+ fprintf (stderr, "%s: `--%s' option given more than once%s\n",
+ package_name, long_opt,
+ (additional_error ? additional_error : ""));
+ return 1; /* failure */
+ }
+
+
+ if (field_given && *field_given && ! override)
+ return 0;
+ if (prev_given)
+ (*prev_given)++;
+ if (field_given)
+ (*field_given)++;
+ if (possible_values)
+ val = possible_values[found];
+
+ switch(arg_type) {
+ case ARG_FLAG:
+ *((int *)field) = !*((int *)field);
+ break;
+ case ARG_INT:
+ if (val) *((int *)field) = strtol (val, &stop_char, 0);
+ break;
+ case ARG_DOUBLE:
+ if (val) *((double *)field) = strtod (val, &stop_char);
+ break;
+ case ARG_STRING:
+ if (val) {
+ string_field = (char **)field;
+ if (!no_free && *string_field)
+ free (*string_field); /* free previous string */
+ *string_field = gengetopt_strdup (val);
+ }
+ break;
+ default:
+ break;
+ };
+
+ /* check numeric conversion */
+ switch(arg_type) {
+ case ARG_INT:
+ case ARG_DOUBLE:
+ if (val && !(stop_char && *stop_char == '\0')) {
+ fprintf(stderr, "%s: invalid numeric value: %s\n", package_name, val);
+ return 1; /* failure */
+ }
+ break;
+ default:
+ ;
+ };
+
+ /* store the original value */
+ switch(arg_type) {
+ case ARG_NO:
+ case ARG_FLAG:
+ break;
+ default:
+ if (value && orig_field) {
+ if (no_free) {
+ *orig_field = value;
+ } else {
+ if (*orig_field)
+ free (*orig_field); /* free previous string */
+ *orig_field = gengetopt_strdup (value);
+ }
+ }
+ };
+
+ return 0; /* OK */
+}
+
+/**
+ * @brief store information about a multiple option in a temporary list
+ * @param list where to (temporarily) store multiple options
+ */
+static
+int update_multiple_arg_temp(struct generic_list **list,
+ unsigned int *prev_given, const char *val,
+ char *possible_values[], const char *default_value,
+ cmdline_parser_clitkRegionGrowing_arg_type arg_type,
+ const char *long_opt, char short_opt,
+ const char *additional_error)
+{
+ char *multi_token, *multi_next; /* store single arguments */
+
+ if (arg_type == ARG_NO) {
+ (*prev_given)++;
+ return 0; /* OK */
+ }
+
+ multi_token = get_multiple_arg_token(val);
+ multi_next = get_multiple_arg_token_next (val);
+
+ while (1)
+ {
+ add_node (list);
+ if (update_arg((void *)&((*list)->arg), &((*list)->orig), 0,
+ prev_given, multi_token, possible_values, default_value,
+ arg_type, 0, 1, 1, 1, long_opt, short_opt, additional_error)) {
+ if (multi_token) free(multi_token);
+ return 1; /* failure */
+ }
+
+ if (multi_next)
+ {
+ multi_token = get_multiple_arg_token(multi_next);
+ multi_next = get_multiple_arg_token_next (multi_next);
+ }
+ else
+ break;
+ }
+
+ return 0; /* OK */
+}
+
+/**
+ * @brief free the passed list (including possible string argument)
+ */
+static
+void free_list(struct generic_list *list, short string_arg)
+{
+ if (list) {
+ struct generic_list *tmp;
+ while (list)
+ {
+ tmp = list;
+ if (string_arg && list->arg.string_arg)
+ free (list->arg.string_arg);
+ if (list->orig)
+ free (list->orig);
+ list = list->next;
+ free (tmp);
+ }
+ }
+}
+
+/**
+ * @brief updates a multiple option starting from the passed list
+ */
+static
+void update_multiple_arg(void *field, char ***orig_field,
+ unsigned int field_given, unsigned int prev_given, union generic_value *default_value,
+ cmdline_parser_clitkRegionGrowing_arg_type arg_type,
+ struct generic_list *list)
+{
+ int i;
+ struct generic_list *tmp;
+
+ if (prev_given && list) {
+ *orig_field = (char **) realloc (*orig_field, (field_given + prev_given) * sizeof (char *));
+
+ switch(arg_type) {
+ case ARG_INT:
+ *((int **)field) = (int *)realloc (*((int **)field), (field_given + prev_given) * sizeof (int)); break;
+ case ARG_DOUBLE:
+ *((double **)field) = (double *)realloc (*((double **)field), (field_given + prev_given) * sizeof (double)); break;
+ case ARG_STRING:
+ *((char ***)field) = (char **)realloc (*((char ***)field), (field_given + prev_given) * sizeof (char *)); break;
+ default:
+ break;
+ };
+
+ for (i = (prev_given - 1); i >= 0; --i)
+ {
+ tmp = list;
+
+ switch(arg_type) {
+ case ARG_INT:
+ (*((int **)field))[i + field_given] = tmp->arg.int_arg; break;
+ case ARG_DOUBLE:
+ (*((double **)field))[i + field_given] = tmp->arg.double_arg; break;
+ case ARG_STRING:
+ (*((char ***)field))[i + field_given] = tmp->arg.string_arg; break;
+ default:
+ break;
+ }
+ (*orig_field) [i + field_given] = list->orig;
+ list = list->next;
+ free (tmp);
+ }
+ } else { /* set the default value */
+ if (default_value && ! field_given) {
+ switch(arg_type) {
+ case ARG_INT:
+ if (! *((int **)field)) {
+ *((int **)field) = (int *)malloc (sizeof (int));
+ (*((int **)field))[0] = default_value->int_arg;
+ }
+ break;
+ case ARG_DOUBLE:
+ if (! *((double **)field)) {
+ *((double **)field) = (double *)malloc (sizeof (double));
+ (*((double **)field))[0] = default_value->double_arg;
+ }
+ break;
+ case ARG_STRING:
+ if (! *((char ***)field)) {
+ *((char ***)field) = (char **)malloc (sizeof (char *));
+ (*((char ***)field))[0] = gengetopt_strdup(default_value->string_arg);
+ }
+ break;
+ default: break;
+ }
+ if (!(*orig_field)) {
+ *orig_field = (char **) malloc (sizeof (char *));
+ (*orig_field)[0] = NULL;
+ }
+ }
+ }
+}
+
+int
+cmdline_parser_clitkRegionGrowing_internal (int argc, char * const *argv, struct args_info_clitkRegionGrowing *args_info,
+ struct cmdline_parser_clitkRegionGrowing_params *params, const char *additional_error)
+{
+ int c; /* Character of the parsed option. */
+ union generic_value multiple_default_value;
+
+ struct generic_list * seed_list = NULL;
+ struct generic_list * seedRadius_list = NULL;
+ struct generic_list * radius_list = NULL;
+ int error = 0;
+ struct args_info_clitkRegionGrowing local_args_info;
+
+ int override;
+ int initialize;
+ int check_required;
+ int check_ambiguity;
+
+ package_name = argv[0];
+
+ override = params->override;
+ initialize = params->initialize;
+ check_required = params->check_required;
+ check_ambiguity = params->check_ambiguity;
+
+ if (initialize)
+ cmdline_parser_clitkRegionGrowing_init (args_info);
+
+ cmdline_parser_clitkRegionGrowing_init (&local_args_info);
+
+ optarg = 0;
+ optind = 0;
+ opterr = params->print_errors;
+ optopt = '?';
+
+ while (1)
+ {
+ int option_index = 0;
+
+ static struct option long_options[] = {
+ { "help", 0, NULL, 'h' },
+ { "version", 0, NULL, 'V' },
+ { "config", 1, NULL, 0 },
+ { "verbose", 0, NULL, 'v' },
+ { "input", 1, NULL, 'i' },
+ { "output", 1, NULL, 'o' },
+ { "type", 1, NULL, 't' },
+ { "lower", 1, NULL, 'l' },
+ { "upper", 1, NULL, 'u' },
+ { "maxUpper", 1, NULL, 0 },
+ { "minLower", 1, NULL, 0 },
+ { "step", 1, NULL, 0 },
+ { "minStep", 1, NULL, 0 },
+ { "adaptLower", 0, NULL, 0 },
+ { "adaptUpper", 0, NULL, 0 },
+ { "multiplier", 1, NULL, 'm' },
+ { "seed", 1, NULL, 's' },
+ { "seedRadius", 1, NULL, 0 },
+ { "pad", 1, NULL, 'p' },
+ { "radius", 1, NULL, 'r' },
+ { "maxSD", 1, NULL, 0 },
+ { "full", 0, NULL, 0 },
+ { "iter", 1, NULL, 0 },
+ { NULL, 0, NULL, 0 }
+ };
+
+ custom_optarg = optarg;
+ custom_optind = optind;
+ custom_opterr = opterr;
+ custom_optopt = optopt;
+
+ c = custom_getopt_long (argc, argv, "hVvi:o:t:l:u:m:s:p:r:", long_options, &option_index);
+
+ optarg = custom_optarg;
+ optind = custom_optind;
+ opterr = custom_opterr;
+ optopt = custom_optopt;
+
+ if (c == -1) break; /* Exit from `while (1)' loop. */
+
+ switch (c)
+ {
+ case 'h': /* Print help and exit. */
+ cmdline_parser_clitkRegionGrowing_print_help ();
+ cmdline_parser_clitkRegionGrowing_free (&local_args_info);
+ exit (EXIT_SUCCESS);
+
+ case 'V': /* Print version and exit. */
+ cmdline_parser_clitkRegionGrowing_print_version ();
+ cmdline_parser_clitkRegionGrowing_free (&local_args_info);
+ exit (EXIT_SUCCESS);
+
+ case 'v': /* Verbose. */
+
+
+ if (update_arg((void *)&(args_info->verbose_flag), 0, &(args_info->verbose_given),
+ &(local_args_info.verbose_given), optarg, 0, 0, ARG_FLAG,
+ check_ambiguity, override, 1, 0, "verbose", 'v',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'i': /* Input image filename. */
+
+
+ if (update_arg( (void *)&(args_info->input_arg),
+ &(args_info->input_orig), &(args_info->input_given),
+ &(local_args_info.input_given), optarg, 0, 0, ARG_STRING,
+ check_ambiguity, override, 0, 0,
+ "input", 'i',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'o': /* Output image filename. */
+
+
+ if (update_arg( (void *)&(args_info->output_arg),
+ &(args_info->output_orig), &(args_info->output_given),
+ &(local_args_info.output_given), optarg, 0, 0, ARG_STRING,
+ check_ambiguity, override, 0, 0,
+ "output", 'o',
+ additional_error))
+ goto failure;
+
+ break;
+ case 't': /* Region growing filter type: 0=threshold , 1=neighborhood-threshold , 2=confidence , 3= locally-adaptive-threshold, 4= explosion-controlled-threshold. */
+
+
+ if (update_arg( (void *)&(args_info->type_arg),
+ &(args_info->type_orig), &(args_info->type_given),
+ &(local_args_info.type_given), optarg, 0, "0", ARG_INT,
+ check_ambiguity, override, 0, 0,
+ "type", 't',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'l': /* 1,2,3,4: Lower threshold value. */
+
+
+ if (update_arg( (void *)&(args_info->lower_arg),
+ &(args_info->lower_orig), &(args_info->lower_given),
+ &(local_args_info.lower_given), optarg, 0, "310", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "lower", 'l',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'u': /* 1,2,3,4: Upper threshold value. */
+
+
+ if (update_arg( (void *)&(args_info->upper_arg),
+ &(args_info->upper_orig), &(args_info->upper_given),
+ &(local_args_info.upper_given), optarg, 0, "4000", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "upper", 'u',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'm': /* 2-4: (2-3) accept if within mean+-mutiplier*SD, (4) explosion if size increases multiplier times. */
+
+
+ if (update_arg( (void *)&(args_info->multiplier_arg),
+ &(args_info->multiplier_orig), &(args_info->multiplier_given),
+ &(local_args_info.multiplier_given), optarg, 0, "2.0", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "multiplier", 'm',
+ additional_error))
+ goto failure;
+
+ break;
+ case 's': /* Seed index postion (in voxels). */
+
+ if (update_multiple_arg_temp(&seed_list,
+ &(local_args_info.seed_given), optarg, 0, "0", ARG_INT,
+ "seed", 's',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'p': /* The replace padding value. */
+
+
+ if (update_arg( (void *)&(args_info->pad_arg),
+ &(args_info->pad_orig), &(args_info->pad_given),
+ &(local_args_info.pad_given), optarg, 0, "1.0", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "pad", 'p',
+ additional_error))
+ goto failure;
+
+ break;
+ case 'r': /* 1-3: The radius of the neighborhood. */
+
+ if (update_multiple_arg_temp(&radius_list,
+ &(local_args_info.radius_given), optarg, 0, "1", ARG_INT,
+ "radius", 'r',
+ additional_error))
+ goto failure;
+
+ break;
+
+ case 0: /* Long option with no short option */
+ /* Config file. */
+ if (strcmp (long_options[option_index].name, "config") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->config_arg),
+ &(args_info->config_orig), &(args_info->config_given),
+ &(local_args_info.config_given), optarg, 0, 0, ARG_STRING,
+ check_ambiguity, override, 0, 0,
+ "config", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 4: Maximum upper threshold value. */
+ else if (strcmp (long_options[option_index].name, "maxUpper") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->maxUpper_arg),
+ &(args_info->maxUpper_orig), &(args_info->maxUpper_given),
+ &(local_args_info.maxUpper_given), optarg, 0, "2000", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "maxUpper", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 4: Minimum lower threshold value. */
+ else if (strcmp (long_options[option_index].name, "minLower") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->minLower_arg),
+ &(args_info->minLower_orig), &(args_info->minLower_given),
+ &(local_args_info.minLower_given), optarg, 0, "-1000", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "minLower", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 4: Threshold step size. */
+ else if (strcmp (long_options[option_index].name, "step") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->step_arg),
+ &(args_info->step_orig), &(args_info->step_given),
+ &(local_args_info.step_given), optarg, 0, "64.0", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "step", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 4: Minimum threshold step size. */
+ else if (strcmp (long_options[option_index].name, "minStep") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->minStep_arg),
+ &(args_info->minStep_orig), &(args_info->minStep_given),
+ &(local_args_info.minStep_given), optarg, 0, "1", ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "minStep", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 3,4: (locally) adapt lower thresholding. */
+ else if (strcmp (long_options[option_index].name, "adaptLower") == 0)
+ {
+
+
+ if (update_arg((void *)&(args_info->adaptLower_flag), 0, &(args_info->adaptLower_given),
+ &(local_args_info.adaptLower_given), optarg, 0, 0, ARG_FLAG,
+ check_ambiguity, override, 1, 0, "adaptLower", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 3,4: (locally) adapt upper thresholding. */
+ else if (strcmp (long_options[option_index].name, "adaptUpper") == 0)
+ {
+
+
+ if (update_arg((void *)&(args_info->adaptUpper_flag), 0, &(args_info->adaptUpper_given),
+ &(local_args_info.adaptUpper_given), optarg, 0, 0, ARG_FLAG,
+ check_ambiguity, override, 1, 0, "adaptUpper", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* Radius used for seed dilatation(in voxel). */
+ else if (strcmp (long_options[option_index].name, "seedRadius") == 0)
+ {
+
+ if (update_multiple_arg_temp(&seedRadius_list,
+ &(local_args_info.seedRadius_given), optarg, 0, "0", ARG_INT,
+ "seedRadius", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 3: Limit to SD. */
+ else if (strcmp (long_options[option_index].name, "maxSD") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->maxSD_arg),
+ &(args_info->maxSD_orig), &(args_info->maxSD_given),
+ &(local_args_info.maxSD_given), optarg, 0, 0, ARG_DOUBLE,
+ check_ambiguity, override, 0, 0,
+ "maxSD", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 4: use full connectivity (not implemented yet). */
+ else if (strcmp (long_options[option_index].name, "full") == 0)
+ {
+
+
+ if (update_arg((void *)&(args_info->full_flag), 0, &(args_info->full_given),
+ &(local_args_info.full_given), optarg, 0, 0, ARG_FLAG,
+ check_ambiguity, override, 1, 0, "full", '-',
+ additional_error))
+ goto failure;
+
+ }
+ /* 2: Iterations. */
+ else if (strcmp (long_options[option_index].name, "iter") == 0)
+ {
+
+
+ if (update_arg( (void *)&(args_info->iter_arg),
+ &(args_info->iter_orig), &(args_info->iter_given),
+ &(local_args_info.iter_given), optarg, 0, "5", ARG_INT,
+ check_ambiguity, override, 0, 0,
+ "iter", '-',
+ additional_error))
+ goto failure;
+
+ }
+
+ break;
+ case '?': /* Invalid option. */
+ /* `getopt_long' already printed an error message. */
+ goto failure;
+
+ default: /* bug: option not considered. */
+ fprintf (stderr, "%s: option unknown: %c%s\n", CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, c, (additional_error ? additional_error : ""));
+ abort ();
+ } /* switch */
+ } /* while */
+
+
+ update_multiple_arg((void *)&(args_info->seed_arg),
+ &(args_info->seed_orig), args_info->seed_given,
+ local_args_info.seed_given, 0 ,
+ ARG_INT, seed_list);
+ update_multiple_arg((void *)&(args_info->seedRadius_arg),
+ &(args_info->seedRadius_orig), args_info->seedRadius_given,
+ local_args_info.seedRadius_given, 0 ,
+ ARG_INT, seedRadius_list);
+ multiple_default_value.int_arg = 1;
+ update_multiple_arg((void *)&(args_info->radius_arg),
+ &(args_info->radius_orig), args_info->radius_given,
+ local_args_info.radius_given, &multiple_default_value ,
+ ARG_INT, radius_list);
+
+ args_info->seed_given += local_args_info.seed_given;
+ local_args_info.seed_given = 0;
+ args_info->seedRadius_given += local_args_info.seedRadius_given;
+ local_args_info.seedRadius_given = 0;
+ args_info->radius_given += local_args_info.radius_given;
+ local_args_info.radius_given = 0;
+
+ if (check_required)
+ {
+ error += cmdline_parser_clitkRegionGrowing_required2 (args_info, argv[0], additional_error);
+ }
+
+ cmdline_parser_clitkRegionGrowing_release (&local_args_info);
+
+ if ( error )
+ return (EXIT_FAILURE);
+
+ if (optind < argc)
+ {
+ int i = 0 ;
+ int found_prog_name = 0;
+ /* whether program name, i.e., argv[0], is in the remaining args
+ (this may happen with some implementations of getopt,
+ but surely not with the one included by gengetopt) */
+
+
+ args_info->inputs_num = argc - optind - found_prog_name;
+ args_info->inputs =
+ (char **)(malloc ((args_info->inputs_num)*sizeof(char *))) ;
+ while (optind < argc)
+ args_info->inputs[ i++ ] = gengetopt_strdup (argv[optind++]) ;
+ }
+
+ return 0;
+
+failure:
+ free_list (seed_list, 0 );
+ free_list (seedRadius_list, 0 );
+ free_list (radius_list, 0 );
+
+ cmdline_parser_clitkRegionGrowing_release (&local_args_info);
+ return (EXIT_FAILURE);
+}
+
+#ifndef CONFIG_FILE_LINE_SIZE
+#define CONFIG_FILE_LINE_SIZE 2048
+#endif
+#define ADDITIONAL_ERROR " in configuration file "
+
+#define CONFIG_FILE_LINE_BUFFER_SIZE (CONFIG_FILE_LINE_SIZE+3)
+/* 3 is for "--" and "=" */
+
+static int
+_cmdline_parser_clitkRegionGrowing_configfile (char * const filename, int *my_argc)
+{
+ FILE* file;
+ char my_argv[CONFIG_FILE_LINE_BUFFER_SIZE+1];
+ char linebuf[CONFIG_FILE_LINE_SIZE];
+ int line_num = 0;
+ int result = 0, equal;
+ char *fopt, *farg;
+ char *str_index;
+ size_t len, next_token;
+ char delimiter;
+
+ if ((file = fopen(filename, "r")) == NULL)
+ {
+ fprintf (stderr, "%s: Error opening configuration file '%s'\n",
+ CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, filename);
+ return EXIT_FAILURE;
+ }
+
+ while ((fgets(linebuf, CONFIG_FILE_LINE_SIZE, file)) != NULL)
+ {
+ ++line_num;
+ my_argv[0] = '\0';
+ len = strlen(linebuf);
+ if (len > (CONFIG_FILE_LINE_BUFFER_SIZE-1))
+ {
+ fprintf (stderr, "%s:%s:%d: Line too long in configuration file\n",
+ CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, filename, line_num);
+ result = EXIT_FAILURE;
+ break;
+ }
+
+ /* find first non-whitespace character in the line */
+ next_token = strspn (linebuf, " \t\r\n");
+ str_index = linebuf + next_token;
+
+ if ( str_index[0] == '\0' || str_index[0] == '#')
+ continue; /* empty line or comment line is skipped */
+
+ fopt = str_index;
+
+ /* truncate fopt at the end of the first non-valid character */
+ next_token = strcspn (fopt, " \t\r\n=");
+
+ if (fopt[next_token] == '\0') /* the line is over */
+ {
+ farg = NULL;
+ equal = 0;
+ goto noarg;
+ }
+
+ /* remember if equal sign is present */
+ equal = (fopt[next_token] == '=');
+ fopt[next_token++] = '\0';
+
+ /* advance pointers to the next token after the end of fopt */
+ next_token += strspn (fopt + next_token, " \t\r\n");
+
+ /* check for the presence of equal sign, and if so, skip it */
+ if ( !equal )
+ if ((equal = (fopt[next_token] == '=')))
+ {
+ next_token++;
+ next_token += strspn (fopt + next_token, " \t\r\n");
+ }
+ str_index += next_token;
+
+ /* find argument */
+ farg = str_index;
+ if ( farg[0] == '\"' || farg[0] == '\'' )
+ { /* quoted argument */
+ str_index = strchr (++farg, str_index[0] ); /* skip opening quote */
+ if (! str_index)
+ {
+ fprintf
+ (stderr,
+ "%s:%s:%d: unterminated string in configuration file\n",
+ CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, filename, line_num);
+ result = EXIT_FAILURE;
+ break;
+ }
+ }
+ else
+ { /* read up the remaining part up to a delimiter */
+ next_token = strcspn (farg, " \t\r\n#\'\"");
+ str_index += next_token;
+ }
+
+ /* truncate farg at the delimiter and store it for further check */
+ delimiter = *str_index, *str_index++ = '\0';
+
+ /* everything but comment is illegal at the end of line */
+ if (delimiter != '\0' && delimiter != '#')
+ {
+ str_index += strspn(str_index, " \t\r\n");
+ if (*str_index != '\0' && *str_index != '#')
+ {
+ fprintf
+ (stderr,
+ "%s:%s:%d: malformed string in configuration file\n",
+ CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, filename, line_num);
+ result = EXIT_FAILURE;
+ break;
+ }
+ }
+
+ noarg:
+ if (!strcmp(fopt,"include")) {
+ if (farg && *farg) {
+ result = _cmdline_parser_clitkRegionGrowing_configfile(farg, my_argc);
+ } else {
+ fprintf(stderr, "%s:%s:%d: include requires a filename argument.\n",
+ CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE, filename, line_num);
+ }
+ continue;
+ }
+ len = strlen(fopt);
+ strcat (my_argv, len > 1 ? "--" : "-");
+ strcat (my_argv, fopt);
+ if (len > 1 && ((farg && *farg) || equal))
+ strcat (my_argv, "=");
+ if (farg && *farg)
+ strcat (my_argv, farg);
+ ++(*my_argc);
+
+ cmd_line_list_tmp = (struct line_list *) malloc (sizeof (struct line_list));
+ cmd_line_list_tmp->next = cmd_line_list;
+ cmd_line_list = cmd_line_list_tmp;
+ cmd_line_list->string_arg = gengetopt_strdup(my_argv);
+ } /* while */
+
+ if (file)
+ fclose(file);
+ return result;
+}
+
+int
+cmdline_parser_clitkRegionGrowing_configfile (char * const filename,
+ struct args_info_clitkRegionGrowing *args_info,
+ int override, int initialize, int check_required)
+{
+ struct cmdline_parser_clitkRegionGrowing_params params;
+
+ params.override = override;
+ params.initialize = initialize;
+ params.check_required = check_required;
+ params.check_ambiguity = 0;
+ params.print_errors = 1;
+
+ return cmdline_parser_clitkRegionGrowing_config_file (filename, args_info, ¶ms);
+}
+
+int
+cmdline_parser_clitkRegionGrowing_config_file (char * const filename,
+ struct args_info_clitkRegionGrowing *args_info,
+ struct cmdline_parser_clitkRegionGrowing_params *params)
+{
+ int i, result;
+ int my_argc = 1;
+ char **my_argv_arg;
+ char *additional_error;
+
+ /* store the program name */
+ cmd_line_list_tmp = (struct line_list *) malloc (sizeof (struct line_list));
+ cmd_line_list_tmp->next = cmd_line_list;
+ cmd_line_list = cmd_line_list_tmp;
+ cmd_line_list->string_arg = gengetopt_strdup (CMDLINE_PARSER_CLITKREGIONGROWING_PACKAGE);
+
+ result = _cmdline_parser_clitkRegionGrowing_configfile(filename, &my_argc);
+
+ if (result != EXIT_FAILURE) {
+ my_argv_arg = (char **) malloc((my_argc+1) * sizeof(char *));
+ cmd_line_list_tmp = cmd_line_list;
+
+ for (i = my_argc - 1; i >= 0; --i) {
+ my_argv_arg[i] = cmd_line_list_tmp->string_arg;
+ cmd_line_list_tmp = cmd_line_list_tmp->next;
+ }
+
+ my_argv_arg[my_argc] = 0;
+
+ additional_error = (char *)malloc(strlen(filename) + strlen(ADDITIONAL_ERROR) + 1);
+ strcpy (additional_error, ADDITIONAL_ERROR);
+ strcat (additional_error, filename);
+ result =
+ cmdline_parser_clitkRegionGrowing_internal (my_argc, my_argv_arg, args_info,
+ params,
+ additional_error);
+
+ free (additional_error);
+ free (my_argv_arg);
+ }
+
+ free_cmd_list();
+ if (result == EXIT_FAILURE)
+ {
+ cmdline_parser_clitkRegionGrowing_free (args_info);
+ exit (EXIT_FAILURE);
+ }
+
+ return result;
+}