errorchecking.h

   1 #ifndef ERRORCHECKING_H
   2 #define ERRORCHECKING_H
   3 /*
   4  *  errorchecking.h
   5  *  Dotur
   6  *
   7  *  Created by Sarah Westcott on 1/2/09.
   8  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
   9  *
  10  */
  11
  12 #include <iostream>
  13 #include <map>
  14 #include "globaldata.hpp"
  15 #include "validcommands.h"
  16 #include "validparameter.h"
  17 #include "validcalculator.h"
  18
  19 class ErrorCheck {
  20         public:
  21                 ErrorCheck();
  22                 ~ErrorCheck();
  23                 bool checkInput(string);
  24
  25         private:
  26                 GlobalData* globaldata;
  27                 ValidCommands* validCommand;
  28                 ValidParameters* validParameter;
  29                 ValidCalculators* validCalculator;
  30                 void splitAtDash(string&, vector<string>&);
  31                 void splitAtDash(string&, set<int>&);
  32                 void splitAtDash(string&, set<string>&);
  33                 void validateReadFiles();
  34                 void validateReadDist();
  35                 void validateReadPhil();
  36                 void validateParseFiles();
  37                 void validateTreeFiles();
  38                 void clear();
  39                 string phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, orderfile, fastafile, treefile, cutoff, format;
  40                 string precision, method, fileroot, label, line, iters, jumble, freq, single, rarefaction, shared, summary;
  41                 string commandName, optionText;
  42                 bool errorFree;
  43                 vector<string> singleEsimators, sharedEstimators, rareEstimators, summaryEstimators, sharedRareEstimators;
  44
  45 };
  46 #endif