Delete unneeded directory

[jabaws.git] / website / archive / binaries / mac / src / clustalw / src / multipleAlign / MSA.h

diff --git a/website/archive/binaries/mac/src/clustalw/src/multipleAlign/MSA.h b/website/archive/binaries/mac/src/clustalw/src/multipleAlign/MSA.h
deleted file mode 100644 (file)
index acc4788..0000000
--- a/website/archive/binaries/mac/src/clustalw/src/multipleAlign/MSA.h
+++ /dev/null
@@ -1,41 +0,0 @@
-/**
- * Author: Mark Larkin
- * 
- * Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.  
- */
-#ifndef MSA_H
-#define MSA_H
-
-#include <iomanip>
-#include "ProfileBase.h"
-#include "../alignment/Alignment.h"
-//#include "../calcAlignSteps/Tree.h"
-#include "../tree/AlignmentSteps.h"
-#include "ProfileAlignAlgorithm.h"
-
-namespace clustalw
-{
-//using tree::AlignmentSteps;
-
-class MSA
-{
-    public:
-        /* Functions */
-        int multiSeqAlign(Alignment* alnPtr, DistMatrix* distMat, 
-            vector<int>* seqWeight, AlignmentSteps* progSteps, int iStart);
-        int seqsAlignToProfile(Alignment* alnPtr, DistMatrix* distMat, vector<int>* seqWeight, int iStart, 
-                              string phylipName);
-        int calcPairwiseForProfileAlign(Alignment* alnPtr, DistMatrix* distMat);
-        int doProfileAlign(Alignment* alnPtr, DistMatrix* distMat, vector<int>* prof1Weight,
-                           vector<int>* prof2Weight);
-
-        /* Attributes */
-
-    private:
-        /* Functions */
-        
-        /* Attributes */
-};
-
-}
-#endif