applications/hydrodynamics/HydroCmd.cpp

/*
  File autogenerated by gengetopt version 2.22.4
  generated with the following command:
  gengetopt -F HydroCmd -u 

  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>

#ifndef FIX_UNUSED
#define FIX_UNUSED(X) (void) (X) /* avoid warnings for unused params */
#endif

#include <getopt.h>

#include "HydroCmd.h"

const char *gengetopt_args_info_purpose = "\n +-----------------------------------------------------------------------+\n |    ____                    __  ___ ____                               |\n |   / __ \\____  ___  ____   /  |/  // __ \\  The Open Molecular Dynamics |\n |  / / / / __ \\/ _ \\/ __ \\ / /|_/ // / / /  Engine (formerly OOPSE).    |\n | / /_/ / /_/ /  __/ / / // /  / // /_/ /                               |\n | \\____/ .___/\\___/_/ /_//_/  /_//_____/    Copyright 2004-2009 by the  |\n |     /_/                                   University of Notre Dame.   |\n |                                                                       |\n |                                           http://www.openmd.net       |\n |                                                                       |\n | OpenMD is an OpenScience project.  All source code is available for   |\n | any use whatsoever under a BSD-style license.                         |\n |                                                                       |\n | Support OpenScience!  If you use OpenMD or its source code in your    |\n | research, please cite the appropriate papers when you publish your    |\n | work.  Good starting points are:                                      |\n |                                                                       |\n | [1]  Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).              |\n | [2]  Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).           |\n | [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).           |\n | [4]  Vardeman & Gezelter, in progress (2009).                         |\n +-----------------------------------------------------------------------+";

const char *gengetopt_args_info_usage = "Usage: Hydro [OPTIONS]... [FILES]...";

const char *gengetopt_args_info_description = "";

const char *gengetopt_args_info_help[] = {
  "  -h, --help            Print help and exit",
  "  -V, --version         Print version and exit",
  "  -i, --input=filename  input MetaData (md) file",
  "  -o, --output=STRING   output file prefix  (default=`hydro')",
  "      --model=STRING    hydrodynamics model (supports RoughShell and BeadModel)",
  "  -b, --beads           generate the beads only, hydrodynamics will be \n                          performed  (default=off)",
    0
};

typedef enum {ARG_NO
  , ARG_FLAG
  , ARG_STRING
} cmdline_parser_arg_type;

static
void clear_given (struct gengetopt_args_info *args_info);
static
void clear_args (struct gengetopt_args_info *args_info);

static int
cmdline_parser_internal (int argc, char **argv, struct gengetopt_args_info *args_info,
                        struct cmdline_parser_params *params, const char *additional_error);

static int
cmdline_parser_required2 (struct gengetopt_args_info *args_info, const char *prog_name, const char *additional_error);

static char *
gengetopt_strdup (const char *s);

static
void clear_given (struct gengetopt_args_info *args_info)
{
  args_info->help_given = 0 ;
  args_info->version_given = 0 ;
  args_info->input_given = 0 ;
  args_info->output_given = 0 ;
  args_info->model_given = 0 ;
  args_info->beads_given = 0 ;
}

static
void clear_args (struct gengetopt_args_info *args_info)
{
  FIX_UNUSED (args_info);
  args_info->input_arg = NULL;
  args_info->input_orig = NULL;
  args_info->output_arg = gengetopt_strdup ("hydro");
  args_info->output_orig = NULL;
  args_info->model_arg = NULL;
  args_info->model_orig = NULL;
  args_info->beads_flag = 0;
  
}

static
void init_args_info(struct gengetopt_args_info *args_info)
{


  args_info->help_help = gengetopt_args_info_help[0] ;
  args_info->version_help = gengetopt_args_info_help[1] ;
  args_info->input_help = gengetopt_args_info_help[2] ;
  args_info->output_help = gengetopt_args_info_help[3] ;
  args_info->model_help = gengetopt_args_info_help[4] ;
  args_info->beads_help = gengetopt_args_info_help[5] ;
  
}

void
cmdline_parser_print_version (void)
{
  printf ("%s %s\n",
     (strlen(CMDLINE_PARSER_PACKAGE_NAME) ? CMDLINE_PARSER_PACKAGE_NAME : CMDLINE_PARSER_PACKAGE),
     CMDLINE_PARSER_VERSION);
}

static void print_help_common(void) {
  cmdline_parser_print_version ();

  if (strlen(gengetopt_args_info_purpose) > 0)
    printf("\n%s\n", gengetopt_args_info_purpose);

  if (strlen(gengetopt_args_info_usage) > 0)
    printf("\n%s\n", gengetopt_args_info_usage);

  printf("\n");

  if (strlen(gengetopt_args_info_description) > 0)
    printf("%s\n\n", gengetopt_args_info_description);
}

void
cmdline_parser_print_help (void)
{
  int i = 0;
  print_help_common();
  while (gengetopt_args_info_help[i])
    printf("%s\n", gengetopt_args_info_help[i++]);
}

void
cmdline_parser_init (struct gengetopt_args_info *args_info)
{
  clear_given (args_info);
  clear_args (args_info);
  init_args_info (args_info);

  args_info->inputs = 0;
  args_info->inputs_num = 0;
}

void
cmdline_parser_params_init(struct cmdline_parser_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_params *
cmdline_parser_params_create(void)
{
  struct cmdline_parser_params *params = 
    (struct cmdline_parser_params *)malloc(sizeof(struct cmdline_parser_params));
  cmdline_parser_params_init(params);  
  return params;
}

static void
free_string_field (char **s)
{
  if (*s)
    {
      free (*s);
      *s = 0;
    }
}


static void
cmdline_parser_release (struct gengetopt_args_info *args_info)
{
  unsigned int i;
  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->model_arg));
  free_string_field (&(args_info->model_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, const char *values[])
{
  FIX_UNUSED (values);
  if (arg) {
    fprintf(outfile, "%s=\"%s\"\n", opt, arg);
  } else {
    fprintf(outfile, "%s\n", opt);
  }
}


int
cmdline_parser_dump(FILE *outfile, struct gengetopt_args_info *args_info)
{
  int i = 0;

  if (!outfile)
    {
      fprintf (stderr, "%s: cannot dump options to stream\n", CMDLINE_PARSER_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->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->model_given)
    write_into_file(outfile, "model", args_info->model_orig, 0);
  if (args_info->beads_given)
    write_into_file(outfile, "beads", 0, 0 );
  

  i = EXIT_SUCCESS;
  return i;
}

int
cmdline_parser_file_save(const char *filename, struct gengetopt_args_info *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_PACKAGE, filename);
      return EXIT_FAILURE;
    }

  i = cmdline_parser_dump(outfile, args_info);
  fclose (outfile);

  return i;
}

void
cmdline_parser_free (struct gengetopt_args_info *args_info)
{
  cmdline_parser_release (args_info);
}

/** @brief replacement of strdup, which is not standard */
char *
gengetopt_strdup (const char *s)
{
  char *result = 0;
  if (!s)
    return result;

  result = (char*)malloc(strlen(s) + 1);
  if (result == (char*)0)
    return (char*)0;
  strcpy(result, s);
  return result;
}

int
cmdline_parser (int argc, char **argv, struct gengetopt_args_info *args_info)
{
  return cmdline_parser2 (argc, argv, args_info, 0, 1, 1);
}

int
cmdline_parser_ext (int argc, char **argv, struct gengetopt_args_info *args_info,
                   struct cmdline_parser_params *params)
{
  int result;
  result = cmdline_parser_internal (argc, argv, args_info, params, 0);

  if (result == EXIT_FAILURE)
    {
      cmdline_parser_free (args_info);
      exit (EXIT_FAILURE);
    }
  
  return result;
}

int
cmdline_parser2 (int argc, char **argv, struct gengetopt_args_info *args_info, int override, int initialize, int check_required)
{
  int result;
  struct cmdline_parser_params params;
  
  params.override = override;
  params.initialize = initialize;
  params.check_required = check_required;
  params.check_ambiguity = 0;
  params.print_errors = 1;

  result = cmdline_parser_internal (argc, argv, args_info, &params, 0);

  if (result == EXIT_FAILURE)
    {
      cmdline_parser_free (args_info);
      exit (EXIT_FAILURE);
    }
  
  return result;
}

int
cmdline_parser_required (struct gengetopt_args_info *args_info, const char *prog_name)
{
  int result = EXIT_SUCCESS;

  if (cmdline_parser_required2(args_info, prog_name, 0) > 0)
    result = EXIT_FAILURE;

  if (result == EXIT_FAILURE)
    {
      cmdline_parser_free (args_info);
      exit (EXIT_FAILURE);
    }
  
  return result;
}

int
cmdline_parser_required2 (struct gengetopt_args_info *args_info, const char *prog_name, const char *additional_error)
{
  int error = 0;
  FIX_UNUSED (additional_error);

  /* 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->model_given)
    {
      fprintf (stderr, "%s: '--model' option required%s\n", prog_name, (additional_error ? additional_error : ""));
      error = 1;
    }
  
  
  /* checks for dependences among options */

  return error;
}


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_params.check_ambiguity
 * @param override @see cmdline_parser_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, const char *possible_values[],
               const char *default_value,
               cmdline_parser_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;
  FIX_UNUSED (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 */
    }

  FIX_UNUSED (default_value);
    
  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_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;
  };


  /* 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 */
}


int
cmdline_parser_internal (
  int argc, char **argv, struct gengetopt_args_info *args_info,
                        struct cmdline_parser_params *params, const char *additional_error)
{
  int c;        /* Character of the parsed option.  */

  int error = 0;
  struct gengetopt_args_info 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_init (args_info);

  cmdline_parser_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' },
        { "input",      1, NULL, 'i' },
        { "output",     1, NULL, 'o' },
        { "model",      1, NULL, 0 },
        { "beads",      0, NULL, 'b' },
        { 0,  0, 0, 0 }
      };

      c = getopt_long (argc, argv, "hVi:o:b", long_options, &option_index);

      if (c == -1) break;       /* Exit from `while (1)' loop.  */

      switch (c)
        {
        case 'h':       /* Print help and exit.  */
          cmdline_parser_print_help ();
          cmdline_parser_free (&local_args_info);
          exit (EXIT_SUCCESS);

        case 'V':       /* Print version and exit.  */
          cmdline_parser_print_version ();
          cmdline_parser_free (&local_args_info);
          exit (EXIT_SUCCESS);

        case 'i':       /* input MetaData (md) file.  */
        
        
          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 file prefix.  */
        
        
          if (update_arg( (void *)&(args_info->output_arg), 
               &(args_info->output_orig), &(args_info->output_given),
              &(local_args_info.output_given), optarg, 0, "hydro", ARG_STRING,
              check_ambiguity, override, 0, 0,
              "output", 'o',
              additional_error))
            goto failure;
        
          break;
        case 'b':       /* generate the beads only, hydrodynamics will be performed.  */
        
        
          if (update_arg((void *)&(args_info->beads_flag), 0, &(args_info->beads_given),
              &(local_args_info.beads_given), optarg, 0, 0, ARG_FLAG,
              check_ambiguity, override, 1, 0, "beads", 'b',
              additional_error))
            goto failure;
        
          break;

        case 0: /* Long option with no short option */
          /* hydrodynamics model (supports RoughShell and BeadModel).  */
          if (strcmp (long_options[option_index].name, "model") == 0)
          {
          
          
            if (update_arg( (void *)&(args_info->model_arg), 
                 &(args_info->model_orig), &(args_info->model_given),
                &(local_args_info.model_given), optarg, 0, 0, ARG_STRING,
                check_ambiguity, override, 0, 0,
                "model", '-',
                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_PACKAGE, c, (additional_error ? additional_error : ""));
          abort ();
        } /* switch */
    } /* while */


  if (check_required)
    {
      error += cmdline_parser_required2 (args_info, argv[0], additional_error);
    }

  cmdline_parser_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) */

      i = optind;
      while (i < argc)
        if (argv[i++] == argv[0]) {
          found_prog_name = 1;
          break;
        }
      i = 0;

      args_info->inputs_num = argc - optind - found_prog_name;
      args_info->inputs =
        (char **)(malloc ((args_info->inputs_num)*sizeof(char *))) ;
      while (optind < argc)
        if (argv[optind++] != argv[0])
          args_info->inputs[ i++ ] = gengetopt_strdup (argv[optind-1]) ;
    }

  return 0;

failure:
  
  cmdline_parser_release (&local_args_info);
  return (EXIT_FAILURE);
}
Revision:	1655
Committed:	Mon Oct 3 20:32:45 2011 UTC (14 years ago) by gezelter
File size:	18560 byte(s)
Log Message:	Replacing most of the C-code with C++ code, and migrating the config.h file into the PROJECT_BINARY_DIR so that we can have multiple builds on the same architecture.
#	User	Rev	Content
1	tim	891	/*
2	gezelter	1630	File autogenerated by gengetopt version 2.22.4
3	tim	891	generated with the following command:
4	gezelter	1630	gengetopt -F HydroCmd -u
5	tim	891
6			The developers of gengetopt consider the fixed text that goes in all
7			gengetopt output files to be in the public domain:
8			we make no copyright claims on it.
9			*/
10
11	gezelter	938	/* If we use autoconf. */
12			#ifdef HAVE_CONFIG_H
13			#include "config.h"
14			#endif
15	tim	891
16			#include <stdio.h>
17			#include <stdlib.h>
18			#include <string.h>
19
20	gezelter	1630	#ifndef FIX_UNUSED
21			#define FIX_UNUSED(X) (void) (X) /* avoid warnings for unused params */
22			#endif
23	tim	891
24	gezelter	1630	#include <getopt.h>
25
26	tim	891	#include "HydroCmd.h"
27
28	gezelter	1390	const char *gengetopt_args_info_purpose = "\n +-----------------------------------------------------------------------+\n \| ____ __ ___ ____ \|\n \| / __ \\____ ___ ____ / \|/ // __ \\ The Open Molecular Dynamics \|\n \| / / / / __ \\/ _ \\/ __ \\ / /\|_/ // / / / Engine (formerly OOPSE). \|\n \| / /_/ / /_/ / __/ / / // / / // /_/ / \|\n \| \\____/ .___/\\___/_/ /_//_/ /_//_____/ Copyright 2004-2009 by the \|\n \| /_/ University of Notre Dame. \|\n \| \|\n \| http://www.openmd.net \|\n \| \|\n \| OpenMD is an OpenScience project. All source code is available for \|\n \| any use whatsoever under a BSD-style license. \|\n \| \|\n \| Support OpenScience! If you use OpenMD or its source code in your \|\n \| research, please cite the appropriate papers when you publish your \|\n \| work. Good starting points are: \|\n \| \|\n \| [1] Meineke, et al., J. Comp. Chem. 26, 252-271 (2005). \|\n \| [2] Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006). \|\n \| [3] Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008). \|\n \| [4] Vardeman & Gezelter, in progress (2009). \|\n +-----------------------------------------------------------------------+";
29
30	gezelter	1630	const char *gengetopt_args_info_usage = "Usage: Hydro [OPTIONS]... [FILES]...";
31	gezelter	1390
32			const char *gengetopt_args_info_description = "";
33
34			const char *gengetopt_args_info_help[] = {
35			" -h, --help Print help and exit",
36			" -V, --version Print version and exit",
37			" -i, --input=filename input MetaData (md) file",
38			" -o, --output=STRING output file prefix (default=`hydro')",
39			" --model=STRING hydrodynamics model (supports RoughShell and BeadModel)",
40			" -b, --beads generate the beads only, hydrodynamics will be \n performed (default=off)",
41			0
42			};
43
44			typedef enum {ARG_NO
45			, ARG_FLAG
46			, ARG_STRING
47			} cmdline_parser_arg_type;
48
49	gezelter	938	static
50			void clear_given (struct gengetopt_args_info *args_info);
51			static
52			void clear_args (struct gengetopt_args_info *args_info);
53
54			static int
55	gezelter	1630	cmdline_parser_internal (int argc, char *argv, struct gengetopt_args_info args_info,
56	gezelter	1390	struct cmdline_parser_params params, const char additional_error);
57	gezelter	938
58			static int
59			cmdline_parser_required2 (struct gengetopt_args_info args_info, const char prog_name, const char *additional_error);
60
61			static char *
62			gengetopt_strdup (const char *s);
63
64			static
65			void clear_given (struct gengetopt_args_info *args_info)
66			{
67			args_info->help_given = 0 ;
68			args_info->version_given = 0 ;
69			args_info->input_given = 0 ;
70			args_info->output_given = 0 ;
71			args_info->model_given = 0 ;
72			args_info->beads_given = 0 ;
73			}
74
75			static
76			void clear_args (struct gengetopt_args_info *args_info)
77			{
78	gezelter	1630	FIX_UNUSED (args_info);
79	gezelter	938	args_info->input_arg = NULL;
80			args_info->input_orig = NULL;
81			args_info->output_arg = gengetopt_strdup ("hydro");
82			args_info->output_orig = NULL;
83			args_info->model_arg = NULL;
84			args_info->model_orig = NULL;
85			args_info->beads_flag = 0;
86
87			}
88
89	gezelter	1390	static
90			void init_args_info(struct gengetopt_args_info *args_info)
91			{
92
93
94			args_info->help_help = gengetopt_args_info_help[0] ;
95			args_info->version_help = gengetopt_args_info_help[1] ;
96			args_info->input_help = gengetopt_args_info_help[2] ;
97			args_info->output_help = gengetopt_args_info_help[3] ;
98			args_info->model_help = gengetopt_args_info_help[4] ;
99			args_info->beads_help = gengetopt_args_info_help[5] ;
100
101			}
102
103	tim	891	void
104			cmdline_parser_print_version (void)
105			{
106	gezelter	1630	printf ("%s %s\n",
107			(strlen(CMDLINE_PARSER_PACKAGE_NAME) ? CMDLINE_PARSER_PACKAGE_NAME : CMDLINE_PARSER_PACKAGE),
108			CMDLINE_PARSER_VERSION);
109	tim	891	}
110
111	gezelter	1390	static void print_help_common(void) {
112			cmdline_parser_print_version ();
113
114			if (strlen(gengetopt_args_info_purpose) > 0)
115			printf("\n%s\n", gengetopt_args_info_purpose);
116
117			if (strlen(gengetopt_args_info_usage) > 0)
118			printf("\n%s\n", gengetopt_args_info_usage);
119
120			printf("\n");
121
122			if (strlen(gengetopt_args_info_description) > 0)
123	gezelter	1630	printf("%s\n\n", gengetopt_args_info_description);
124	gezelter	1390	}
125
126	tim	891	void
127			cmdline_parser_print_help (void)
128			{
129	gezelter	1390	int i = 0;
130			print_help_common();
131			while (gengetopt_args_info_help[i])
132			printf("%s\n", gengetopt_args_info_help[i++]);
133	tim	891	}
134
135	gezelter	938	void
136			cmdline_parser_init (struct gengetopt_args_info *args_info)
137			{
138			clear_given (args_info);
139			clear_args (args_info);
140	gezelter	1390	init_args_info (args_info);
141	gezelter	1630
142			args_info->inputs = 0;
143			args_info->inputs_num = 0;
144	gezelter	938	}
145	tim	891
146	gezelter	1390	void
147			cmdline_parser_params_init(struct cmdline_parser_params *params)
148			{
149			if (params)
150			{
151			params->override = 0;
152			params->initialize = 1;
153			params->check_required = 1;
154			params->check_ambiguity = 0;
155			params->print_errors = 1;
156			}
157			}
158
159			struct cmdline_parser_params *
160			cmdline_parser_params_create(void)
161			{
162			struct cmdline_parser_params *params =
163			(struct cmdline_parser_params *)malloc(sizeof(struct cmdline_parser_params));
164			cmdline_parser_params_init(params);
165			return params;
166			}
167
168	gezelter	938	static void
169	gezelter	1390	free_string_field (char **s)
170			{
171			if (*s)
172			{
173			free (*s);
174			*s = 0;
175			}
176			}
177
178
179			static void
180	gezelter	938	cmdline_parser_release (struct gengetopt_args_info *args_info)
181			{
182	gezelter	1630	unsigned int i;
183	gezelter	1390	free_string_field (&(args_info->input_arg));
184			free_string_field (&(args_info->input_orig));
185			free_string_field (&(args_info->output_arg));
186			free_string_field (&(args_info->output_orig));
187			free_string_field (&(args_info->model_arg));
188			free_string_field (&(args_info->model_orig));
189	gezelter	938
190	gezelter	1390
191	gezelter	1630	for (i = 0; i < args_info->inputs_num; ++i)
192			free (args_info->inputs [i]);
193	gezelter	1390
194	gezelter	1630	if (args_info->inputs_num)
195			free (args_info->inputs);
196
197	gezelter	1390	clear_given (args_info);
198			}
199
200
201			static void
202	gezelter	1630	write_into_file(FILE outfile, const char opt, const char arg, const char values[])
203	gezelter	1390	{
204	gezelter	1630	FIX_UNUSED (values);
205	gezelter	1390	if (arg) {
206			fprintf(outfile, "%s=\"%s\"\n", opt, arg);
207			} else {
208			fprintf(outfile, "%s\n", opt);
209			}
210			}
211
212
213			int
214			cmdline_parser_dump(FILE outfile, struct gengetopt_args_info args_info)
215			{
216			int i = 0;
217
218			if (!outfile)
219	gezelter	938	{
220	gezelter	1390	fprintf (stderr, "%s: cannot dump options to stream\n", CMDLINE_PARSER_PACKAGE);
221			return EXIT_FAILURE;
222	gezelter	938	}
223	gezelter	1390
224			if (args_info->help_given)
225			write_into_file(outfile, "help", 0, 0 );
226			if (args_info->version_given)
227			write_into_file(outfile, "version", 0, 0 );
228			if (args_info->input_given)
229			write_into_file(outfile, "input", args_info->input_orig, 0);
230			if (args_info->output_given)
231			write_into_file(outfile, "output", args_info->output_orig, 0);
232			if (args_info->model_given)
233			write_into_file(outfile, "model", args_info->model_orig, 0);
234			if (args_info->beads_given)
235			write_into_file(outfile, "beads", 0, 0 );
236	gezelter	938
237	gezelter	1390
238			i = EXIT_SUCCESS;
239			return i;
240	gezelter	938	}
241	tim	891
242	gezelter	938	int
243			cmdline_parser_file_save(const char filename, struct gengetopt_args_info args_info)
244			{
245			FILE *outfile;
246			int i = 0;
247
248			outfile = fopen(filename, "w");
249
250			if (!outfile)
251			{
252			fprintf (stderr, "%s: cannot open file for writing: %s\n", CMDLINE_PARSER_PACKAGE, filename);
253			return EXIT_FAILURE;
254			}
255
256	gezelter	1390	i = cmdline_parser_dump(outfile, args_info);
257	gezelter	938	fclose (outfile);
258
259			return i;
260			}
261
262			void
263			cmdline_parser_free (struct gengetopt_args_info *args_info)
264			{
265			cmdline_parser_release (args_info);
266			}
267
268	gezelter	1390	/** @brief replacement of strdup, which is not standard */
269	tim	891	char *
270			gengetopt_strdup (const char *s)
271			{
272	gezelter	1630	char *result = 0;
273	gezelter	938	if (!s)
274			return result;
275
276			result = (char*)malloc(strlen(s) + 1);
277	tim	891	if (result == (char*)0)
278			return (char*)0;
279			strcpy(result, s);
280			return result;
281			}
282
283			int
284	gezelter	1630	cmdline_parser (int argc, char *argv, struct gengetopt_args_info args_info)
285	tim	891	{
286	gezelter	938	return cmdline_parser2 (argc, argv, args_info, 0, 1, 1);
287			}
288	tim	891
289	gezelter	938	int
290	gezelter	1630	cmdline_parser_ext (int argc, char *argv, struct gengetopt_args_info args_info,
291	gezelter	1390	struct cmdline_parser_params *params)
292			{
293			int result;
294	gezelter	1630	result = cmdline_parser_internal (argc, argv, args_info, params, 0);
295	gezelter	1390
296			if (result == EXIT_FAILURE)
297			{
298			cmdline_parser_free (args_info);
299			exit (EXIT_FAILURE);
300			}
301
302			return result;
303			}
304
305			int
306	gezelter	1630	cmdline_parser2 (int argc, char *argv, struct gengetopt_args_info args_info, int override, int initialize, int check_required)
307	gezelter	938	{
308			int result;
309	gezelter	1390	struct cmdline_parser_params params;
310
311			params.override = override;
312			params.initialize = initialize;
313			params.check_required = check_required;
314			params.check_ambiguity = 0;
315			params.print_errors = 1;
316	gezelter	938
317	gezelter	1630	result = cmdline_parser_internal (argc, argv, args_info, &params, 0);
318	gezelter	938
319			if (result == EXIT_FAILURE)
320			{
321			cmdline_parser_free (args_info);
322			exit (EXIT_FAILURE);
323			}
324
325			return result;
326	tim	891	}
327
328	gezelter	938	int
329			cmdline_parser_required (struct gengetopt_args_info args_info, const char prog_name)
330			{
331			int result = EXIT_SUCCESS;
332	tim	891
333	gezelter	1630	if (cmdline_parser_required2(args_info, prog_name, 0) > 0)
334	gezelter	938	result = EXIT_FAILURE;
335
336			if (result == EXIT_FAILURE)
337			{
338			cmdline_parser_free (args_info);
339			exit (EXIT_FAILURE);
340			}
341
342			return result;
343			}
344
345			int
346			cmdline_parser_required2 (struct gengetopt_args_info args_info, const char prog_name, const char *additional_error)
347			{
348			int error = 0;
349	gezelter	1630	FIX_UNUSED (additional_error);
350	gezelter	938
351	gezelter	1390	/* checks for required options */
352	gezelter	938	if (! args_info->input_given)
353			{
354			fprintf (stderr, "%s: '--input' ('-i') option required%s\n", prog_name, (additional_error ? additional_error : ""));
355			error = 1;
356			}
357	gezelter	1390
358	gezelter	938	if (! args_info->model_given)
359			{
360			fprintf (stderr, "%s: '--model' option required%s\n", prog_name, (additional_error ? additional_error : ""));
361			error = 1;
362			}
363	gezelter	1390
364
365			/* checks for dependences among options */
366	gezelter	938
367			return error;
368			}
369
370	gezelter	1390
371			static char *package_name = 0;
372
373			/**
374			* @brief updates an option
375			* @param field the generic pointer to the field to update
376			* @param orig_field the pointer to the orig field
377			* @param field_given the pointer to the number of occurrence of this option
378			* @param prev_given the pointer to the number of occurrence already seen
379			* @param value the argument for this option (if null no arg was specified)
380			* @param possible_values the possible values for this option (if specified)
381			* @param default_value the default value (in case the option only accepts fixed values)
382			* @param arg_type the type of this option
383			* @param check_ambiguity @see cmdline_parser_params.check_ambiguity
384			* @param override @see cmdline_parser_params.override
385			* @param no_free whether to free a possible previous value
386			* @param multiple_option whether this is a multiple option
387			* @param long_opt the corresponding long option
388			* @param short_opt the corresponding short option (or '-' if none)
389			* @param additional_error possible further error specification
390			*/
391			static
392			int update_arg(void field, char *orig_field,
393			unsigned int field_given, unsigned int prev_given,
394	gezelter	1630	char value, const char possible_values[],
395			const char *default_value,
396	gezelter	1390	cmdline_parser_arg_type arg_type,
397			int check_ambiguity, int override,
398			int no_free, int multiple_option,
399			const char *long_opt, char short_opt,
400			const char *additional_error)
401			{
402			char *stop_char = 0;
403			const char *val = value;
404			int found;
405			char **string_field;
406	gezelter	1630	FIX_UNUSED (field);
407	gezelter	1390
408			stop_char = 0;
409			found = 0;
410
411			if (!multiple_option && prev_given && (prev_given \|\| (check_ambiguity && field_given)))
412			{
413			if (short_opt != '-')
414			fprintf (stderr, "%s: `--%s' (`-%c') option given more than once%s\n",
415			package_name, long_opt, short_opt,
416			(additional_error ? additional_error : ""));
417			else
418			fprintf (stderr, "%s: `--%s' option given more than once%s\n",
419			package_name, long_opt,
420			(additional_error ? additional_error : ""));
421			return 1; /* failure */
422			}
423
424	gezelter	1630	FIX_UNUSED (default_value);
425	gezelter	1390
426			if (field_given && *field_given && ! override)
427			return 0;
428			if (prev_given)
429			(*prev_given)++;
430			if (field_given)
431			(*field_given)++;
432			if (possible_values)
433			val = possible_values[found];
434
435			switch(arg_type) {
436			case ARG_FLAG:
437			((int )field) = !((int )field);
438			break;
439			case ARG_STRING:
440			if (val) {
441			string_field = (char **)field;
442			if (!no_free && *string_field)
443			free (string_field); / free previous string */
444			*string_field = gengetopt_strdup (val);
445			}
446			break;
447			default:
448			break;
449			};
450
451
452			/* store the original value */
453			switch(arg_type) {
454			case ARG_NO:
455			case ARG_FLAG:
456			break;
457			default:
458			if (value && orig_field) {
459			if (no_free) {
460			*orig_field = value;
461			} else {
462			if (*orig_field)
463			free (orig_field); / free previous string */
464			*orig_field = gengetopt_strdup (value);
465			}
466			}
467			};
468
469			return 0; /* OK */
470			}
471
472
473	gezelter	938	int
474	gezelter	1630	cmdline_parser_internal (
475			int argc, char *argv, struct gengetopt_args_info args_info,
476	gezelter	1390	struct cmdline_parser_params params, const char additional_error)
477	gezelter	938	{
478			int c; /* Character of the parsed option. */
479
480			int error = 0;
481			struct gengetopt_args_info local_args_info;
482	gezelter	1390
483			int override;
484			int initialize;
485			int check_required;
486			int check_ambiguity;
487
488			package_name = argv[0];
489
490			override = params->override;
491			initialize = params->initialize;
492			check_required = params->check_required;
493			check_ambiguity = params->check_ambiguity;
494	gezelter	938
495			if (initialize)
496			cmdline_parser_init (args_info);
497
498			cmdline_parser_init (&local_args_info);
499
500	tim	891	optarg = 0;
501	gezelter	938	optind = 0;
502	gezelter	1390	opterr = params->print_errors;
503	tim	891	optopt = '?';
504
505			while (1)
506			{
507			int option_index = 0;
508
509			static struct option long_options[] = {
510			{ "help", 0, NULL, 'h' },
511			{ "version", 0, NULL, 'V' },
512			{ "input", 1, NULL, 'i' },
513			{ "output", 1, NULL, 'o' },
514			{ "model", 1, NULL, 0 },
515	tim	921	{ "beads", 0, NULL, 'b' },
516	gezelter	1630	{ 0, 0, 0, 0 }
517	tim	891	};
518
519	tim	921	c = getopt_long (argc, argv, "hVi:o:b", long_options, &option_index);
520	tim	891
521			if (c == -1) break; /* Exit from `while (1)' loop. */
522
523			switch (c)
524			{
525			case 'h': /* Print help and exit. */
526			cmdline_parser_print_help ();
527	gezelter	938	cmdline_parser_free (&local_args_info);
528	tim	891	exit (EXIT_SUCCESS);
529
530			case 'V': /* Print version and exit. */
531			cmdline_parser_print_version ();
532	gezelter	938	cmdline_parser_free (&local_args_info);
533	tim	891	exit (EXIT_SUCCESS);
534
535	xsun	1177	case 'i': /* input MetaData (md) file. */
536	gezelter	1390
537
538			if (update_arg( (void *)&(args_info->input_arg),
539			&(args_info->input_orig), &(args_info->input_given),
540			&(local_args_info.input_given), optarg, 0, 0, ARG_STRING,
541			check_ambiguity, override, 0, 0,
542			"input", 'i',
543			additional_error))
544			goto failure;
545
546	tim	891	break;
547			case 'o': /* output file prefix. */
548	gezelter	1390
549
550			if (update_arg( (void *)&(args_info->output_arg),
551			&(args_info->output_orig), &(args_info->output_given),
552			&(local_args_info.output_given), optarg, 0, "hydro", ARG_STRING,
553			check_ambiguity, override, 0, 0,
554			"output", 'o',
555			additional_error))
556			goto failure;
557
558	tim	891	break;
559	tim	921	case 'b': /* generate the beads only, hydrodynamics will be performed. */
560	gezelter	1390
561
562			if (update_arg((void *)&(args_info->beads_flag), 0, &(args_info->beads_given),
563			&(local_args_info.beads_given), optarg, 0, 0, ARG_FLAG,
564			check_ambiguity, override, 1, 0, "beads", 'b',
565			additional_error))
566			goto failure;
567
568	tim	921	break;
569	tim	891
570			case 0: /* Long option with no short option */
571	xsun	1177	/* hydrodynamics model (supports RoughShell and BeadModel). */
572	tim	906	if (strcmp (long_options[option_index].name, "model") == 0)
573	tim	891	{
574	gezelter	1390
575
576			if (update_arg( (void *)&(args_info->model_arg),
577			&(args_info->model_orig), &(args_info->model_given),
578			&(local_args_info.model_given), optarg, 0, 0, ARG_STRING,
579			check_ambiguity, override, 0, 0,
580			"model", '-',
581			additional_error))
582			goto failure;
583
584	tim	891	}
585
586	gezelter	938	break;
587	tim	891	case '?': /* Invalid option. */
588			/* `getopt_long' already printed an error message. */
589	gezelter	938	goto failure;
590	tim	891
591			default: /* bug: option not considered. */
592	gezelter	938	fprintf (stderr, "%s: option unknown: %c%s\n", CMDLINE_PARSER_PACKAGE, c, (additional_error ? additional_error : ""));
593	tim	891	abort ();
594			} /* switch */
595			} /* while */
596
597
598	gezelter	938
599			if (check_required)
600	tim	891	{
601	gezelter	938	error += cmdline_parser_required2 (args_info, argv[0], additional_error);
602	tim	891	}
603
604	gezelter	938	cmdline_parser_release (&local_args_info);
605
606			if ( error )
607	xsun	1177	return (EXIT_FAILURE);
608	gezelter	938
609	gezelter	1630	if (optind < argc)
610			{
611			int i = 0 ;
612			int found_prog_name = 0;
613			/* whether program name, i.e., argv[0], is in the remaining args
614			(this may happen with some implementations of getopt,
615			but surely not with the one included by gengetopt) */
616
617			i = optind;
618			while (i < argc)
619			if (argv[i++] == argv[0]) {
620			found_prog_name = 1;
621			break;
622			}
623			i = 0;
624
625			args_info->inputs_num = argc - optind - found_prog_name;
626			args_info->inputs =
627			(char *)(malloc ((args_info->inputs_num)sizeof(char *))) ;
628			while (optind < argc)
629			if (argv[optind++] != argv[0])
630			args_info->inputs[ i++ ] = gengetopt_strdup (argv[optind-1]) ;
631			}
632
633	tim	891	return 0;
634	gezelter	938
635			failure:
636
637			cmdline_parser_release (&local_args_info);
638			return (EXIT_FAILURE);
639	tim	891	}