validcommands.cpp

   1 /*
   2  *  validcommands.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 "validcommands.h"
  11
  12 /***********************************************************************/
  13
  14 ValidCommands::ValidCommands() {
  15         try {
  16
  17                 commands["read.dist"]                   = "read.dist";
  18                 commands["read.otu"]                    = "read.otu";
  19                 commands["read.tree"]                   = "read.tree";
  20                 commands["cluster"]                             = "cluster";
  21                 commands["deconvolute"]                 = "deconvolute";
  22                 commands["parsimony"]                   = "parsimony";
  23                 commands["help"]                                = "help";
  24                 commands["quit"]                                = "quit";
  25                 commands["collect.single"]              = "collect.single";
  26                 commands["collect.shared"]              = "collect.shared";
  27                 commands["get.group"]           = "get.group";
  28                 commands["get.label"]           = "get.label";
  29                 commands["get.line"]            = "get.line";
  30                 commands["rarefaction.single"]  = "rarefaction.single";
  31                 commands["rarefaction.shared"]  = "rarefaction.shared";
  32                 commands["summary.single"]              = "summary.single";
  33                 commands["summary.shared"]              = "summary.shared";
  34                 commands["unifrac.weighted"]    = "unifrac.weighted";
  35                 commands["unifrac.unweighted"]  = "unifrac.unweighted";
  36
  37
  38         }
  39         catch(exception& e) {
  40                 cout << "Standard Error: " << e.what() << " has occurred in the ValidCommands class Function ValidCommands. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  41                 exit(1);
  42         }
  43         catch(...) {
  44                 cout << "An unknown error has occurred in the ValidCommands class function ValidCommands. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  45                 exit(1);
  46         }
  47 }
  48
  49 /***********************************************************************/
  50
  51 ValidCommands::~ValidCommands() {}
  52
  53 /***********************************************************************/
  54 bool ValidCommands::isValidCommand(string command) {
  55         try {
  56
  57                 //is the command in the map
  58                 if ((commands.find(command)) != (commands.end())) {
  59                         return true;
  60                 }else{
  61                         cout << command << " is not a valid command in Mothur.  Valid commands are ";
  62                         for (it = commands.begin(); it != commands.end(); it++) {
  63                                 cout << it->first << ", ";
  64                         }
  65                         cout << endl;
  66                         return false;
  67                 }
  68
  69         }
  70         catch(exception& e) {
  71                 cout << "Standard Error: " << e.what() << " has occurred in the ValidCommands class Function isValidCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  72                 exit(1);
  73         }
  74         catch(...) {
  75                 cout << "An unknown error has occurred in the ValidCommands class function isValidCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  76                 exit(1);
  77         }
  78 }
  79
  80 /***********************************************************************/
  81 void ValidCommands::printCommands(ostream& out) {
  82         try {
  83                 out << "Valid commands are ";
  84                 for (it = commands.begin(); it != commands.end(); it++) {
  85                         out << it->first << ", ";
  86                 }
  87                 out << endl;
  88         }
  89         catch(exception& e) {
  90                 cout << "Standard Error: " << e.what() << " has occurred in the ValidCommands class Function printCommands. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  91                 exit(1);
  92         }
  93         catch(...) {
  94                 cout << "An unknown error has occurred in the ValidCommands class function printCommands. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  95                 exit(1);
  96         }
  97 }
  98
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