X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=engine.hpp;h=0e7721a1ba1a51566eaab52b909604a50d5a70eb;hb=dd173a49e37f6bae73a63c32dd7c98d317bb4a79;hp=c04cd4ed69306116f7eb72e64bf5fd2e01d92015;hpb=bfbc55964f1977da72c2cea984288a427d370a59;p=mothur.git

diff --git a/engine.hpp b/engine.hpp
index c04cd4e..0e7721a 100644
--- a/engine.hpp
+++ b/engine.hpp
@@ -13,33 +13,43 @@
 
 
 #include "mothur.h"
-
-using namespace std;
+#include "globaldata.hpp"
+#include "commandoptionparser.hpp"
+#include "command.hpp"
+#include "commandfactory.hpp"
+#include "mothurout.h"
 
 class GlobalData;
 
 class Engine {
 public:
-	virtual ~Engine(){};
+	Engine(); 
+	virtual ~Engine(){}
 	virtual bool getInput() = 0;
-//	string getCommand()			{	return command;		}
-	vector<string> getOptions() {	return options;		}
+	virtual string getCommand();
+	virtual string getOutputDir()			{	return cFactory->getOutputDir();	}
+	virtual string getLogFileName()			{	return cFactory->getLogfileName(); 	}
+	virtual bool getAppend()				{	return cFactory->getAppend();		}
+
+	vector<string> getOptions()		{	return options;		}
 protected:
-//	string command;
 	vector<string> options;
+	CommandFactory* cFactory;
+	MothurOut* mout;
 };
 
 
 
 class BatchEngine : public Engine {
 public:
-	BatchEngine(string);
+	BatchEngine(string, string);
 	~BatchEngine();
 	virtual bool getInput();
 	int openedBatch;
 private:
 	GlobalData* globaldata;
 	ifstream inputBatchFile;
+	string getNextCommand(ifstream&);
 
 };
 
@@ -47,7 +57,7 @@ private:
 
 class InteractEngine : public Engine {
 public:
-	InteractEngine();
+	InteractEngine(string);
 	~InteractEngine();
 	virtual bool getInput();
 private:
@@ -55,4 +65,18 @@ private:
 };
 
 
+class ScriptEngine : public Engine {
+public:
+	ScriptEngine(string, string);
+	~ScriptEngine();
+	virtual bool getInput();
+	int openedBatch;
+private:
+	GlobalData* globaldata;
+	string listOfCommands;
+	string getNextCommand(string&);
+
+};
+
+
 #endif