utils/sysbuilder/cmdline.c

/*
  File autogenerated by gengetopt version 2.10
  generated with the following command:
  gengetopt --unamed-opts 

  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.
*/


#include <stdio.h>
#include <stdlib.h>
#include <string.h>

/* If we use autoconf.  */
#ifdef HAVE_CONFIG_H
#include "config.h"
#endif

#include "getopt.h"

#include "cmdline.h"

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

void
cmdline_parser_print_help (void)
{
  cmdline_parser_print_version ();
  printf("\n"
  "Usage: %s [OPTIONS]... [FILES]...\n", CMDLINE_PARSER_PACKAGE);
  printf("   -h         --help                   Print help and exit\n");
  printf("   -V         --version                Print version and exit\n");
  printf("   -n         --nanoparticle           Build nanoparticle model (default=off)\n");
  printf("   -vDOUBLE   --vacancies=DOUBLE       Build nanoparticle with vacancies %.\n");
  printf("              --vacancyradius=DOUBLE   Radius(A) between core-shell interface to build vacancies.\n");
  printf("              --core=STRING            Core model name. For a single component particle, the model for the particle.\n");
  printf("              --shell=STRING           Shell model name.\n");
  printf("              --randomparticle=DOUBLE  Create an random configuration mole fraction %.\n");
  printf("              --bilayer                Tries to build a basic bilayer with the specified number of lipids in the input bass file. The bilayer will be surrounded by the number of solvent molecules specified in the bass file. -note: combined with -r the simulation will start the lipids randomly oriented in a sea of water. (default=off)\n");
  printf("              --lipid=STRING           Lipid model in BASS file\n");
  printf("              --water=STRING           Water model in BASS file\n");
  printf("   -r         --random                 Build randomly oriented  lipids in a sea of water (default=off)\n");
  printf("   -ISTRING   --include=STRING         File name that should be included at the top of the output bass file.\n");
  printf("   -oSTRING   --output=STRING          Output file name\n");
}


static char *gengetopt_strdup (const char *s);

/* gengetopt_strdup() */
/* strdup.c replacement of strdup, which is not standard */
char *
gengetopt_strdup (const char *s)
{
  char *result = (char*)malloc(strlen(s) + 1);
  if (result == (char*)0)
    return (char*)0;
  strcpy(result, s);
  return result;
}

int
cmdline_parser (int argc, char * const *argv, struct gengetopt_args_info *args_info)
{
  int c;        /* Character of the parsed option.  */
  int i;        /* Counter */
  struct include_list
  {
    char * include_arg;
    struct include_list * next;
  };
  struct include_list * include_list = NULL,* include_new = NULL;
  
  int missing_required_options = 0;

  args_info->help_given = 0 ;
  args_info->version_given = 0 ;
  args_info->nanoparticle_given = 0 ;
  args_info->vacancies_given = 0 ;
  args_info->vacancyradius_given = 0 ;
  args_info->core_given = 0 ;
  args_info->shell_given = 0 ;
  args_info->randomparticle_given = 0 ;
  args_info->bilayer_given = 0 ;
  args_info->lipid_given = 0 ;
  args_info->water_given = 0 ;
  args_info->random_given = 0 ;
  args_info->include_given = 0 ;
  args_info->output_given = 0 ;
#define clear_args() { \
  args_info->nanoparticle_flag = 0;\
  args_info->core_arg = NULL; \
  args_info->shell_arg = NULL; \
  args_info->bilayer_flag = 0;\
  args_info->lipid_arg = NULL; \
  args_info->water_arg = NULL; \
  args_info->random_flag = 0;\
  args_info->include_arg = NULL; \
  args_info->output_arg = NULL; \
}

  clear_args();

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

  optarg = 0;
  optind = 1;
  opterr = 1;
  optopt = '?';

  while (1)
    {
      int option_index = 0;
      char *stop_char;

      static struct option long_options[] = {
        { "help",       0, NULL, 'h' },
        { "version",    0, NULL, 'V' },
        { "nanoparticle",       0, NULL, 'n' },
        { "vacancies",  1, NULL, 'v' },
        { "vacancyradius",      1, NULL, 0 },
        { "core",       1, NULL, 0 },
        { "shell",      1, NULL, 0 },
        { "randomparticle",     1, NULL, 0 },
        { "bilayer",    0, NULL, 0 },
        { "lipid",      1, NULL, 0 },
        { "water",      1, NULL, 0 },
        { "random",     0, NULL, 'r' },
        { "include",    1, NULL, 'I' },
        { "output",     1, NULL, 'o' },
        { NULL, 0, NULL, 0 }
      };

      stop_char = 0;
      c = getopt_long (argc, argv, "hVnv:rI:o:", long_options, &option_index);

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

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

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

        case 'n':       /* Build nanoparticle model.  */
          if (args_info->nanoparticle_given)
            {
              fprintf (stderr, "%s: `--nanoparticle' (`-n') option given more than once\n", CMDLINE_PARSER_PACKAGE);
              clear_args ();
              exit (EXIT_FAILURE);
            }
          args_info->nanoparticle_given = 1;
          args_info->nanoparticle_flag = !(args_info->nanoparticle_flag);
          break;

        case 'v':       /* Build nanoparticle with vacancies %..  */
          if (args_info->vacancies_given)
            {
              fprintf (stderr, "%s: `--vacancies' (`-v') option given more than once\n", CMDLINE_PARSER_PACKAGE);
              clear_args ();
              exit (EXIT_FAILURE);
            }
          args_info->vacancies_given = 1;
          args_info->vacancies_arg = strtod (optarg, NULL);
          break;

        case 'r':       /* Build randomly oriented  lipids in a sea of water.  */
          if (args_info->random_given)
            {
              fprintf (stderr, "%s: `--random' (`-r') option given more than once\n", CMDLINE_PARSER_PACKAGE);
              clear_args ();
              exit (EXIT_FAILURE);
            }
          args_info->random_given = 1;
          args_info->random_flag = !(args_info->random_flag);
          break;

        case 'I':       /* File name that should be included at the top of the output bass file..  */
          args_info->include_given++;
          include_new = (struct include_list *) malloc (sizeof (struct include_list));
          include_new->next = include_list;
          include_list = include_new;
        
            
          include_new->include_arg = gengetopt_strdup (optarg);
          break;

        case 'o':       /* Output file name.  */
          if (args_info->output_given)
            {
              fprintf (stderr, "%s: `--output' (`-o') option given more than once\n", CMDLINE_PARSER_PACKAGE);
              clear_args ();
              exit (EXIT_FAILURE);
            }
          args_info->output_given = 1;
          args_info->output_arg = gengetopt_strdup (optarg);
          break;


        case 0: /* Long option with no short option */
          /* Radius(A) between core-shell interface to build vacancies..  */
          if (strcmp (long_options[option_index].name, "vacancyradius") == 0)
          {
            if (args_info->vacancyradius_given)
              {
                fprintf (stderr, "%s: `--vacancyradius' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->vacancyradius_given = 1;
            args_info->vacancyradius_arg = strtod (optarg, NULL);
            break;
          }
          
          /* Core model name. For a single component particle, the model for the particle..  */
          else if (strcmp (long_options[option_index].name, "core") == 0)
          {
            if (args_info->core_given)
              {
                fprintf (stderr, "%s: `--core' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->core_given = 1;
            args_info->core_arg = gengetopt_strdup (optarg);
            break;
          }
          
          /* Shell model name..  */
          else if (strcmp (long_options[option_index].name, "shell") == 0)
          {
            if (args_info->shell_given)
              {
                fprintf (stderr, "%s: `--shell' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->shell_given = 1;
            args_info->shell_arg = gengetopt_strdup (optarg);
            break;
          }
          
          /* Create an random configuration mole fraction %..  */
          else if (strcmp (long_options[option_index].name, "randomparticle") == 0)
          {
            if (args_info->randomparticle_given)
              {
                fprintf (stderr, "%s: `--randomparticle' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->randomparticle_given = 1;
            args_info->randomparticle_arg = strtod (optarg, NULL);
            break;
          }
          
          /* Tries to build a basic bilayer with the specified number of lipids in the input bass file. The bilayer will be surrounded by the number of solvent molecules specified in the bass file. -note: combined with -r the simulation will start the lipids randomly oriented in a sea of water..  */
          else if (strcmp (long_options[option_index].name, "bilayer") == 0)
          {
            if (args_info->bilayer_given)
              {
                fprintf (stderr, "%s: `--bilayer' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->bilayer_given = 1;
            args_info->bilayer_flag = !(args_info->bilayer_flag);
            break;
          }
          
          /* Lipid model in BASS file.  */
          else if (strcmp (long_options[option_index].name, "lipid") == 0)
          {
            if (args_info->lipid_given)
              {
                fprintf (stderr, "%s: `--lipid' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->lipid_given = 1;
            args_info->lipid_arg = gengetopt_strdup (optarg);
            break;
          }
          
          /* Water model in BASS file.  */
          else if (strcmp (long_options[option_index].name, "water") == 0)
          {
            if (args_info->water_given)
              {
                fprintf (stderr, "%s: `--water' option given more than once\n", CMDLINE_PARSER_PACKAGE);
                clear_args ();
                exit (EXIT_FAILURE);
              }
            args_info->water_given = 1;
            args_info->water_arg = gengetopt_strdup (optarg);
            break;
          }
          

        case '?':       /* Invalid option.  */
          /* `getopt_long' already printed an error message.  */
          exit (EXIT_FAILURE);

        default:        /* bug: option not considered.  */
          fprintf (stderr, "%s: option unknown: %c\n", CMDLINE_PARSER_PACKAGE, c);
          abort ();
        } /* switch */
    } /* while */


  if ( missing_required_options )
    exit (EXIT_FAILURE);

  args_info->include_arg = (char * *) malloc (args_info->include_given * sizeof (char *));
  for (i = 0; i < args_info->include_given; i++)
    {
      args_info->include_arg [i] = include_list->include_arg;
      include_list = include_list->next;
    }
  
  if (optind < argc)
    {
      int i = 0 ;
  
      args_info->inputs_num = argc - optind ;
      args_info->inputs = 
        (char **)(malloc ((args_info->inputs_num)*sizeof(char *))) ;
      while (optind < argc)
        args_info->inputs[ i++ ] = gengetopt_strdup (argv[optind++]) ; 
    }
  
  return 0;
}
Revision:	678
Committed:	Mon Aug 11 22:12:31 2003 UTC (22 years, 2 months ago) by chuckv
Content type:	text/plain
File size:	12280 byte(s)
Log Message:	Arranged sysbuilder into a subdirectory. Fixed some of sysbuilder to work with new atom allocation in libmdtools.
#	Content
1	/*
2	File autogenerated by gengetopt version 2.10
3	generated with the following command:
4	gengetopt --unamed-opts
5
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
12	#include <stdio.h>
13	#include <stdlib.h>
14	#include <string.h>
15
16	/* If we use autoconf. */
17	#ifdef HAVE_CONFIG_H
18	#include "config.h"
19	#endif
20
21	#include "getopt.h"
22
23	#include "cmdline.h"
24
25	void
26	cmdline_parser_print_version (void)
27	{
28	printf ("%s %s\n", CMDLINE_PARSER_PACKAGE, CMDLINE_PARSER_VERSION);
29	}
30
31	void
32	cmdline_parser_print_help (void)
33	{
34	cmdline_parser_print_version ();
35	printf("\n"
36	"Usage: %s [OPTIONS]... [FILES]...\n", CMDLINE_PARSER_PACKAGE);
37	printf(" -h --help Print help and exit\n");
38	printf(" -V --version Print version and exit\n");
39	printf(" -n --nanoparticle Build nanoparticle model (default=off)\n");
40	printf(" -vDOUBLE --vacancies=DOUBLE Build nanoparticle with vacancies %.\n");
41	printf(" --vacancyradius=DOUBLE Radius(A) between core-shell interface to build vacancies.\n");
42	printf(" --core=STRING Core model name. For a single component particle, the model for the particle.\n");
43	printf(" --shell=STRING Shell model name.\n");
44	printf(" --randomparticle=DOUBLE Create an random configuration mole fraction %.\n");
45	printf(" --bilayer Tries to build a basic bilayer with the specified number of lipids in the input bass file. The bilayer will be surrounded by the number of solvent molecules specified in the bass file. -note: combined with -r the simulation will start the lipids randomly oriented in a sea of water. (default=off)\n");
46	printf(" --lipid=STRING Lipid model in BASS file\n");
47	printf(" --water=STRING Water model in BASS file\n");
48	printf(" -r --random Build randomly oriented lipids in a sea of water (default=off)\n");
49	printf(" -ISTRING --include=STRING File name that should be included at the top of the output bass file.\n");
50	printf(" -oSTRING --output=STRING Output file name\n");
51	}
52
53
54	static char gengetopt_strdup (const char s);
55
56	/* gengetopt_strdup() */
57	/* strdup.c replacement of strdup, which is not standard */
58	char *
59	gengetopt_strdup (const char *s)
60	{
61	char result = (char)malloc(strlen(s) + 1);
62	if (result == (char*)0)
63	return (char*)0;
64	strcpy(result, s);
65	return result;
66	}
67
68	int
69	cmdline_parser (int argc, char * const argv, struct gengetopt_args_info args_info)
70	{
71	int c; /* Character of the parsed option. */
72	int i; /* Counter */
73	struct include_list
74	{
75	char * include_arg;
76	struct include_list * next;
77	};
78	struct include_list * include_list = NULL,* include_new = NULL;
79
80	int missing_required_options = 0;
81
82	args_info->help_given = 0 ;
83	args_info->version_given = 0 ;
84	args_info->nanoparticle_given = 0 ;
85	args_info->vacancies_given = 0 ;
86	args_info->vacancyradius_given = 0 ;
87	args_info->core_given = 0 ;
88	args_info->shell_given = 0 ;
89	args_info->randomparticle_given = 0 ;
90	args_info->bilayer_given = 0 ;
91	args_info->lipid_given = 0 ;
92	args_info->water_given = 0 ;
93	args_info->random_given = 0 ;
94	args_info->include_given = 0 ;
95	args_info->output_given = 0 ;
96	#define clear_args() { \
97	args_info->nanoparticle_flag = 0;\
98	args_info->core_arg = NULL; \
99	args_info->shell_arg = NULL; \
100	args_info->bilayer_flag = 0;\
101	args_info->lipid_arg = NULL; \
102	args_info->water_arg = NULL; \
103	args_info->random_flag = 0;\
104	args_info->include_arg = NULL; \
105	args_info->output_arg = NULL; \
106	}
107
108	clear_args();
109
110	args_info->inputs = NULL;
111	args_info->inputs_num = 0;
112
113	optarg = 0;
114	optind = 1;
115	opterr = 1;
116	optopt = '?';
117
118	while (1)
119	{
120	int option_index = 0;
121	char *stop_char;
122
123	static struct option long_options[] = {
124	{ "help", 0, NULL, 'h' },
125	{ "version", 0, NULL, 'V' },
126	{ "nanoparticle", 0, NULL, 'n' },
127	{ "vacancies", 1, NULL, 'v' },
128	{ "vacancyradius", 1, NULL, 0 },
129	{ "core", 1, NULL, 0 },
130	{ "shell", 1, NULL, 0 },
131	{ "randomparticle", 1, NULL, 0 },
132	{ "bilayer", 0, NULL, 0 },
133	{ "lipid", 1, NULL, 0 },
134	{ "water", 1, NULL, 0 },
135	{ "random", 0, NULL, 'r' },
136	{ "include", 1, NULL, 'I' },
137	{ "output", 1, NULL, 'o' },
138	{ NULL, 0, NULL, 0 }
139	};
140
141	stop_char = 0;
142	c = getopt_long (argc, argv, "hVnv:rI:o:", long_options, &option_index);
143
144	if (c == -1) break; /* Exit from `while (1)' loop. */
145
146	switch (c)
147	{
148	case 'h': /* Print help and exit. */
149	clear_args ();
150	cmdline_parser_print_help ();
151	exit (EXIT_SUCCESS);
152
153	case 'V': /* Print version and exit. */
154	clear_args ();
155	cmdline_parser_print_version ();
156	exit (EXIT_SUCCESS);
157
158	case 'n': /* Build nanoparticle model. */
159	if (args_info->nanoparticle_given)
160	{
161	fprintf (stderr, "%s: `--nanoparticle' (`-n') option given more than once\n", CMDLINE_PARSER_PACKAGE);
162	clear_args ();
163	exit (EXIT_FAILURE);
164	}
165	args_info->nanoparticle_given = 1;
166	args_info->nanoparticle_flag = !(args_info->nanoparticle_flag);
167	break;
168
169	case 'v': /* Build nanoparticle with vacancies %.. */
170	if (args_info->vacancies_given)
171	{
172	fprintf (stderr, "%s: `--vacancies' (`-v') option given more than once\n", CMDLINE_PARSER_PACKAGE);
173	clear_args ();
174	exit (EXIT_FAILURE);
175	}
176	args_info->vacancies_given = 1;
177	args_info->vacancies_arg = strtod (optarg, NULL);
178	break;
179
180	case 'r': /* Build randomly oriented lipids in a sea of water. */
181	if (args_info->random_given)
182	{
183	fprintf (stderr, "%s: `--random' (`-r') option given more than once\n", CMDLINE_PARSER_PACKAGE);
184	clear_args ();
185	exit (EXIT_FAILURE);
186	}
187	args_info->random_given = 1;
188	args_info->random_flag = !(args_info->random_flag);
189	break;
190
191	case 'I': /* File name that should be included at the top of the output bass file.. */
192	args_info->include_given++;
193	include_new = (struct include_list *) malloc (sizeof (struct include_list));
194	include_new->next = include_list;
195	include_list = include_new;
196
197
198	include_new->include_arg = gengetopt_strdup (optarg);
199	break;
200
201	case 'o': /* Output file name. */
202	if (args_info->output_given)
203	{
204	fprintf (stderr, "%s: `--output' (`-o') option given more than once\n", CMDLINE_PARSER_PACKAGE);
205	clear_args ();
206	exit (EXIT_FAILURE);
207	}
208	args_info->output_given = 1;
209	args_info->output_arg = gengetopt_strdup (optarg);
210	break;
211
212
213	case 0: /* Long option with no short option */
214	/* Radius(A) between core-shell interface to build vacancies.. */
215	if (strcmp (long_options[option_index].name, "vacancyradius") == 0)
216	{
217	if (args_info->vacancyradius_given)
218	{
219	fprintf (stderr, "%s: `--vacancyradius' option given more than once\n", CMDLINE_PARSER_PACKAGE);
220	clear_args ();
221	exit (EXIT_FAILURE);
222	}
223	args_info->vacancyradius_given = 1;
224	args_info->vacancyradius_arg = strtod (optarg, NULL);
225	break;
226	}
227
228	/* Core model name. For a single component particle, the model for the particle.. */
229	else if (strcmp (long_options[option_index].name, "core") == 0)
230	{
231	if (args_info->core_given)
232	{
233	fprintf (stderr, "%s: `--core' option given more than once\n", CMDLINE_PARSER_PACKAGE);
234	clear_args ();
235	exit (EXIT_FAILURE);
236	}
237	args_info->core_given = 1;
238	args_info->core_arg = gengetopt_strdup (optarg);
239	break;
240	}
241
242	/* Shell model name.. */
243	else if (strcmp (long_options[option_index].name, "shell") == 0)
244	{
245	if (args_info->shell_given)
246	{
247	fprintf (stderr, "%s: `--shell' option given more than once\n", CMDLINE_PARSER_PACKAGE);
248	clear_args ();
249	exit (EXIT_FAILURE);
250	}
251	args_info->shell_given = 1;
252	args_info->shell_arg = gengetopt_strdup (optarg);
253	break;
254	}
255
256	/* Create an random configuration mole fraction %.. */
257	else if (strcmp (long_options[option_index].name, "randomparticle") == 0)
258	{
259	if (args_info->randomparticle_given)
260	{
261	fprintf (stderr, "%s: `--randomparticle' option given more than once\n", CMDLINE_PARSER_PACKAGE);
262	clear_args ();
263	exit (EXIT_FAILURE);
264	}
265	args_info->randomparticle_given = 1;
266	args_info->randomparticle_arg = strtod (optarg, NULL);
267	break;
268	}
269
270	/* Tries to build a basic bilayer with the specified number of lipids in the input bass file. The bilayer will be surrounded by the number of solvent molecules specified in the bass file. -note: combined with -r the simulation will start the lipids randomly oriented in a sea of water.. */
271	else if (strcmp (long_options[option_index].name, "bilayer") == 0)
272	{
273	if (args_info->bilayer_given)
274	{
275	fprintf (stderr, "%s: `--bilayer' option given more than once\n", CMDLINE_PARSER_PACKAGE);
276	clear_args ();
277	exit (EXIT_FAILURE);
278	}
279	args_info->bilayer_given = 1;
280	args_info->bilayer_flag = !(args_info->bilayer_flag);
281	break;
282	}
283
284	/* Lipid model in BASS file. */
285	else if (strcmp (long_options[option_index].name, "lipid") == 0)
286	{
287	if (args_info->lipid_given)
288	{
289	fprintf (stderr, "%s: `--lipid' option given more than once\n", CMDLINE_PARSER_PACKAGE);
290	clear_args ();
291	exit (EXIT_FAILURE);
292	}
293	args_info->lipid_given = 1;
294	args_info->lipid_arg = gengetopt_strdup (optarg);
295	break;
296	}
297
298	/* Water model in BASS file. */
299	else if (strcmp (long_options[option_index].name, "water") == 0)
300	{
301	if (args_info->water_given)
302	{
303	fprintf (stderr, "%s: `--water' option given more than once\n", CMDLINE_PARSER_PACKAGE);
304	clear_args ();
305	exit (EXIT_FAILURE);
306	}
307	args_info->water_given = 1;
308	args_info->water_arg = gengetopt_strdup (optarg);
309	break;
310	}
311
312
313	case '?': /* Invalid option. */
314	/* `getopt_long' already printed an error message. */
315	exit (EXIT_FAILURE);
316
317	default: /* bug: option not considered. */
318	fprintf (stderr, "%s: option unknown: %c\n", CMDLINE_PARSER_PACKAGE, c);
319	abort ();
320	} /* switch */
321	} /* while */
322
323
324	if ( missing_required_options )
325	exit (EXIT_FAILURE);
326
327	args_info->include_arg = (char * ) malloc (args_info->include_given sizeof (char *));
328	for (i = 0; i < args_info->include_given; i++)
329	{
330	args_info->include_arg [i] = include_list->include_arg;
331	include_list = include_list->next;
332	}
333
334	if (optind < argc)
335	{
336	int i = 0 ;
337
338	args_info->inputs_num = argc - optind ;
339	args_info->inputs =
340	(char *)(malloc ((args_info->inputs_num)sizeof(char *))) ;
341	while (optind < argc)
342	args_info->inputs[ i++ ] = gengetopt_strdup (argv[optind++]) ;
343	}
344
345	return 0;
346	}