* Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
*
*/
-using namespace std;
#include "mothur.h"
-#include "utilities.hpp"
+#include "mothurout.h"
//This class contains a list of all valid parameters in Mothur.
//It has a function which will tell you if your parameter is valid.
public:
ValidParameters();
+ ValidParameters(string);
~ValidParameters();
- bool isValidParameter(string);
- bool isValidParameter(string, string, string);
+ //bool isValidParameter(string, string, string) {return true;}
+ bool isValidParameter(string, vector<string>, string);
vector <string> addParameters(string[], int);
- void initCommandParameters();
void initParameterRanges();
+ string validFile(map<string, string>&, string, bool); //container, parameter, isFile, commandName
private:
- map<string, string> readdist;
- map<string, string> readotu;
- map<string, string> readtree;
- map<string, string> cluster;
- map<string, string> deconvolute;
- map<string, string> parsimony;
- map<string, string> collectsingle;
- map<string, string> collectshared;
- map<string, string> rarefactsingle;
- map<string, string> rarefactshared;
- map<string, string> summarysingle;
- map<string, string> summaryshared;
- map<string, string> unifracweighted;
- map<string, string> unifracunweighted;
- map<string, string> libshuff;
- map<string, string> heatmap;
-
map<string, string>::iterator it;
- map<string, vector<string> > commandParameters;
map<string, vector<string> > parameterRanges;
+ MothurOut* m;
+ string commandName;
};