/usr/include/libMems-1.6/libMems/PairwiseMatchFinder.h is in libmems-1.6-dev 1.6.0+4725-4.
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* $Id: PairwiseMatchFinder.h,v 1.8 2004/03/01 02:40:08 darling Exp $
* This file is copyright 2002-2007 Aaron Darling and authors listed in the AUTHORS file.
* This file is licensed under the GPL.
* Please see the file called COPYING for licensing details.
* **************
******************************************************************************/
#ifndef _PairwiseMatchFinder_h_
#define _PairwiseMatchFinder_h_
#ifdef HAVE_CONFIG_H
#include "config.h"
#endif
#include "libMems/MemHash.h"
namespace mems {
/**
* Finds all pairwise matches with unique seeds among a group of sequences
*/
class PairwiseMatchFinder : public mems::MemHash
{
public:
PairwiseMatchFinder();
~PairwiseMatchFinder();
PairwiseMatchFinder(const PairwiseMatchFinder& mh);
virtual PairwiseMatchFinder* Clone() const;
protected:
virtual boolean EnumerateMatches( mems::IdmerList& match_list );
};
}
#endif //_PairwiseMatchFinder_h_
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