--- a/BEDTools-Version-2.14.3/src/subtractBed/subtractBed.h	Thu Nov 03 10:25:04 2011 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,53 +0,0 @@
-/*****************************************************************************
-  subtractBed.h
-
-  (c) 2009 - Aaron Quinlan
-  Hall Laboratory
-  Department of Biochemistry and Molecular Genetics
-  University of Virginia
-  aaronquinlan@gmail.com
-
-  Licenced under the GNU General Public License 2.0 license.
-******************************************************************************/
-#ifndef SUBTRACTBED_H
-#define SUBTRACTBED_H
-
-#include "bedFile.h"
-#include <vector>
-#include <iostream>
-#include <fstream>
-
-using namespace std;
-
-//************************************************
-// Class methods and elements
-//************************************************
-class BedSubtract {
-
-public:
-
-    // constructor
-    BedSubtract(string &bedAFile, string &bedBFile, float overlapFraction, bool sameStrand, bool diffStrand);
-
-    // destructor
-    ~BedSubtract(void);
-
-private:
-
-    // processing variables
-    string _bedAFile;
-    string _bedBFile;
-    float _overlapFraction;
-    bool _sameStrand;
-    bool _diffStrand;
-
-
-    // instances of bed file class.
-    BedFile *_bedA, *_bedB;
-
-    // methods
-    void FindAndSubtractOverlaps(BED &a, vector<BED> &hits);
-    void SubtractBed();
-};
-
-#endif /* SUBTRACTBED_H */