added commandParameter class

diff --git a/commandparameter.h b/commandparameter.h
new file mode 100644 (file)
index 0000000..9dda0a1
--- /dev/null
+++ b/commandparameter.h
@@ -0,0 +1,51 @@
+#ifndef COMMANDPARAMETER_H
+#define COMMANDPARAMETER_H
+
+
+/*
+ *  commandparameter.h
+ *  Mothur
+ *
+ *  Created by westcott on 3/23/11.
+ *  Copyright 2011 Schloss Lab. All rights reserved.
+ *
+ */
+
+
+
+#include "mothur.h"
+
+//**********************************************************************************************************************
+
+class CommandParameter {
+       
+       public:
+               CommandParameter() { name = ""; type = ""; options = ""; optionsDefault = ""; chooseOnlyOneGroup = ""; chooseAtLeastOneGroup = ""; linkedGroup = ""; multipleSelectionAllowed = false; required = false; }
+               CommandParameter(string n, string t, string o, string d, string only, string atLeast, string linked, bool m, bool r) : name(n), type(t), options(o), optionsDefault(d), 
+                               chooseOnlyOneGroup(only), chooseAtLeastOneGroup(atLeast), linkedGroup(linked), multipleSelectionAllowed(m), required(r) {}
+               ~CommandParameter() {}
+       
+               string name;            //something like fasta, processors, method
+               string type;  //must be set to "Boolean", "Multiple", "Number", "String", "InputTypes" - InputTypes is for file inputs
+               string options; //if the parameter has specific options allowed, used for parameters of type "Multiple", something like "furthest-nearest-average", or "sobs-chao...", leave blank for command that do not required specific options
+               string optionsDefault;   //the default for this parameter, could be something like "F" for a boolean or "100" for a number or "sobs-chao" for multiple
+               
+       
+               //for chooseOnlyOneGroup, chooseAtLeastOneGroup and linkedGroup if no group is needed set to "none".
+               string chooseOnlyOneGroup; //for file inputs: if a command has several options for input files but you can only choose one then put them in a group
+                                                                       //for instance in the read.dist command you can use a phylip or column file but not both so set chooseOnlyOneGroup for both parameters to something like "DistanceFileGroup"
+               string chooseAtLeastOneGroup; //for file inputs: if a command has several options for input files and you want to make sure one is choosen then put them in a group
+                                                                       //for instance in the read.dist command you must provide a phylip or column file so set chooseAtLeastOneGroup for both parameters to something like "DistanceFileGroup"
+               string linkedGroup; //for file inputs: if a command has a file option were if you provide one you must provide another you can put them in a group
+                                                                               //for instance in the read.dist command if you provide a column file you must provide a name file so set linkedGroup for both parameters to something like "ColumnNameGroup"
+
+               bool multipleSelectionAllowed; //for "Multiple" type to say whether you can select multiple options, for instance for calc parameter set to true, but for method set to false
+               bool required; //is this parameter required
+       
+               
+       private:
+};
+
+//**********************************************************************************************************************
+
+#endif