+++ /dev/null
-/**
- * Author: Mark Larkin
- *
- * Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.
- */
-/**
- * The AlignmentSteps class is used to hold the progressive alignment steps that have
- * been calculated from the guide tree.
- *
- * Note: I have pushed an empty vector onto steps, so that the steps will match up
- * with the old sets array.
- *
- ***************************************************************************************/
-
-#ifndef ALIGNMENTSTEPS_H
-#define ALIGNMENTSTEPS_H
-
-#include <vector>
-#include <string>
-#include <iostream>
-
-using namespace std;
-
-namespace clustalw
-{
-
-class AlignmentSteps
-{
- public:
- /* Functions */
- AlignmentSteps() : numSteps(0){steps.push_back(vector<int>());}; // Empty vector
- void saveSet(int n, int *groups);
- void saveSet(vector<int>* groups);
- int getNumSteps();
- string getNextStep();
- void printAlignSteps();
- const vector<vector<int> >* getSteps(){return &steps;};
- vector<int>* getStep(int i){return &steps[i];};
- void clear();
- /* Attributes */
-
- private:
- /* Functions */
-
- /* Attributes */
- vector<vector<int> > steps;
- int numSteps;
-};
-
-}
-#endif