--- trunk/src/applications/dump2Xyz/Dump2XYZCmd.c	2005/02/04 22:43:54	291
+++ trunk/src/applications/dump2Xyz/Dump2XYZCmd.c	2005/02/07 21:11:22	302
@@ -1,7 +1,7 @@
 /*
   File autogenerated by gengetopt version 2.11
   generated with the following command:
-  gengetopt -i Dump2XYZ.ggo 
+  /home/maul/gezelter/tim/bin/gengetopt -F Dump2XYZCmd 
 
   The developers of gengetopt consider the fixed text that goes in all
   gengetopt output files to be in the public domain:
@@ -47,7 +47,14 @@ cmdline_parser_print_help (void)
   printf("  -r, --rigidbody                   add a pseudo COM atom to rigidbody  \n                                      (default=off)\n");
   printf("  -t, --watertype                   replace the atom type of water model  \n                                      (default=on)\n");
   printf("  -g, --ignore=atomtype             ignore the atom types\n");
-  printf("  -s, --selection=selection script  general selection syntax(now only support \n                                      select atoms within a specified range)\n");
+  printf("  -s, --selection=selection script  selection syntax:\n"                                      
+	 "                                    select DMPC -- select DMPC molecule\n"                     
+         "                                    select DMPC.* -- select all atoms and all rigidbodies belong to DMPC molecule(same as above)\n"           
+         "                                    select not DMPC -- select all atoms and all rigidbodies do not belong to DMPC molecule\n"	
+	 "                                    select C* and 4 to 7 -- select stuntdoubles which match C* and which index is between [4, 7)\n"  
+         "                                    select 5 -- select stuntdobule whose global index is 5\n"                                       
+         "                                    select within (5.0, HDP or PO4) -- select stuntdoubles which is within 5 A to HDP or PO4\n" 
+         "                                    select DMPC.DMPC_RB_*.* --select atoms belong to rigid body inside DMPC molecule \n");
   printf("      --repeatX=INT                 The number of images to repeat in the x \n                                      direction  (default=`0')\n");
   printf("      --repeatY=INT                 The number of images to repeat in the y \n                                      direction  (default=`0')\n");
   printf("      --repeatZ=INT                 The number of images to repeat in the z \n                                      direction  (default=`0')\n");
@@ -271,7 +278,12 @@ cmdline_parser (int argc, char * const *argv, struct g
           ignore_new->ignore_arg = gengetopt_strdup (optarg);
           break;
 
-        case 's':	/* general selection syntax(now only support select atoms within a specified range).  */
+        case 's':	/* general selection syntax:\n
+select DMPC -- select DMPC molecule\n \
+select DMPC.* -- select all atoms and all rigidbodies belong to DMPC molecule\n \
+select 5 -- select stuntdobule whose global index is 5\n \
+select within (5.0, HDP or PO4) -- select stuntdoubles which is within 5 A to HDP or PO4\n \
+select DMPC.DMPC_RB_*.* --select atoms belong to rigid body inside DMPC molecule .  */
           if (args_info->selection_given)
             {
               fprintf (stderr, "%s: `--selection' (`-s') option given more than once\n", CMDLINE_PARSER_PACKAGE);