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["cluster"]                             = "cluster";
  20                 commands["deconvolute"]                 = "deconvolute";
  21                 commands["help"]                                = "help";
  22                 commands["quit"]                                = "quit";
  23                 commands["collect.single"]              = "collect.single";
  24                 commands["collect.shared"]              = "collect.shared";
  25                 commands["rarefaction.single"]  = "rarefaction.single";
  26                 commands["rarefaction.shared"]  = "rarefaction.shared";
  27                 commands["summary.single"]              = "summary.single";
  28                 commands["summary.shared"]              = "summary.shared";
  29
  30         }
  31         catch(exception& e) {
  32                 cout << "Standard Error: " << e.what() << " has occurred in the ValidCommands class Function ValidCommands. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  33                 exit(1);
  34         }
  35         catch(...) {
  36                 cout << "An unknown error has occurred in the ValidCommands class function ValidCommands. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  37                 exit(1);
  38         }
  39 }
  40
  41 /***********************************************************************/
  42
  43 ValidCommands::~ValidCommands() {}
  44
  45 /***********************************************************************/
  46 bool ValidCommands::isValidCommand(string command) {
  47         try {
  48
  49                 //is the command in the map
  50                 if ((commands.find(command)) != (commands.end())) {
  51                         return true;
  52                 }else{
  53                         cout << command << " is not a valid command in Mothur.  Valid commands are read.dist(), read.otu(), cluster(), collect.single(), collect.shared(), rarefaction.single(), rarefaction.shared(), summary.single(), summary.shared(), quit(), help()." << endl;
  54                         return false;
  55                 }
  56
  57         }
  58         catch(exception& e) {
  59                 cout << "Standard Error: " << e.what() << " has occurred in the ValidCommands class Function isValidCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  60                 exit(1);
  61         }
  62         catch(...) {
  63                 cout << "An unknown error has occurred in the ValidCommands class function isValidCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
  64                 exit(1);
  65         }
  66 }
  67
  68 /***********************************************************************/