+++ /dev/null
-/**
- * Author: Mark Larkin
- *
- * Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.
- */
-#ifndef PROFILEWITHSUB_H
-#define PROFILEWITHSUB_H
-
-#include "../alignment/Alignment.h"
-#include "ProfileBase.h"
-
-namespace clustalw
-{
-
-class ProfileWithSub : public ProfileBase
-{
- public:
- /* Functions */
- ProfileWithSub(int prfLen, int firstS, int lastS);
- void resetPrf1();
- void calcProfileWithSub(SeqArray* seqArray, vector<int>* gaps,
- int matrix[NUMRES][NUMRES], vector<int>* seqWeight);
-
- /* Attributes */
-
- private:
- /* Functions */
-
- /* Attributes */
-};
-
-}
-
-#endif