validparameter.cpp

   1 /*
   2  *  validparameter.cpp
   3  *  Dotur
   4  *
   5  *  Created by Sarah Westcott on 1/5/09.
   6  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
   7  *
   8  */
   9
  10 #include "validparameter.h"
  11
  12 /***********************************************************************/
  13
  14 ValidParameters::ValidParameters() {
  15         try {
  16
  17                 parameters["phylip"]            = "phylip";
  18                 parameters["column"]            = "column";
  19                 parameters["list"]                      = "list";
  20                 parameters["rabund"]            = "rabund";
  21                 parameters["sabund"]            = "sabund";
  22                 parameters["shared"]            = "shared";
  23                 parameters["name"]                      = "name";
  24                 parameters["group"]                     = "group";
  25                 parameters["order"]                     = "order";
  26                 parameters["fasta"]                     = "fasta";
  27                 parameters["tree"]                      = "tree";
  28                 parameters["fileroot"]                  = "fileroot";
  29                 parameters["cutoff"]                    = "cutoff";
  30                 parameters["method"]                    = "method";
  31                 parameters["format"]                    = "format";
  32                 parameters["precision"]                 = "precision";
  33                 parameters["label"]                             = "label";
  34                 parameters["line"]                              = "line";
  35                 parameters["iters"]                             = "iters";
  36                 parameters["jumble"]                    = "jumble";
  37                 parameters["freq"]                              = "freq";
  38                 parameters["abund"]             = "abund";
  39                 parameters["random"]                    = "random";
  40                 parameters["groups"]                    = "groups";
  41                 parameters["calc"]                              = "calc";
  42                 parameters["step"]                              = "step";
  43                 parameters["form"]                              = "form";
  44
  45         }
  46         catch(exception& e) {
  47                 cout << "Standard Error: " << e.what() << " has occurred in the ValidParameters class Function ValidParameters. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  48                 exit(1);
  49         }
  50         catch(...) {
  51                 cout << "An unknown error has occurred in the ValidParameters class function ValidParameters. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  52                 exit(1);
  53         }
  54 }
  55
  56 /***********************************************************************/
  57
  58 ValidParameters::~ValidParameters() {}
  59
  60 /***********************************************************************/
  61 bool ValidParameters::isValidParameter(string parameter) {
  62         try {
  63
  64                 //is the parameter in the map
  65                 if ((parameters.find(parameter)) != (parameters.end())) {
  66                         return true;
  67                 }else{
  68                         cout << parameter << " is not a valid parameter in Mothur. Valid parameters are " << endl;
  69                         for (it = parameters.begin(); it != parameters.end(); it++) {
  70                                 cout << it->first << ", ";
  71                         }
  72                         cout << endl;
  73
  74                         return false;
  75                 }
  76
  77         }
  78         catch(exception& e) {
  79                 cout << "Standard Error: " << e.what() << " has occurred in the ValidParameters class Function isValidParameter. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  80                 exit(1);
  81         }
  82         catch(...) {
  83                 cout << "An unknown error has occurred in the ValidParameters class function isValidParameter. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  84                 exit(1);
  85         }
  86 }
  87
  88 /***********************************************************************/