/**
 * Class that invokes the whole program
 * @author Gard Thomassen
 * @see ProgramManager 
 * @see Interaction
 * @see Control
 */

public class Invoke{

    /**
     * Main method, 
     * Creates a Manager object, and tells the manager to start the program
     * First a object of the Interaction class is created.
     * Then it creates a pointer to a control object, the control object is 
     * created and returned by calling the interact method in class Interaction. 
     * Finally it creates a ProgramManager object, giving it the data from the control object.
     * Then it tells the ProgramManager object to start the search.
     * @param args arguments from the command line (none needed)
     */
    
    public static void main(String[] args) throws Exception{

	Interaction interaction = new Interaction();
	Control control;
	control=interaction.interact();
	

	ProgramManager pmanager = new ProgramManager(control.consensuses, control.fileName, control.seqReader, control.thresholds);
	pmanager.start_ncRNAfinder();
    }//end main

}//end class Invoke