/* SequenceGMRChunk.h
 * Copyright (C) 2008, Francisco Claude, all rights reserved.
 *
 * gmr_chunk
 *
 * This library is free software; you can redistribute it and/or
 * modify it under the terms of the GNU Lesser General Public
 * License as published by the Free Software Foundation; either
 * version 2.1 of the License, or (at your option) any later version.
 *
 * This library is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
 * Lesser General Public License for more details.
 *
 * You should have received a copy of the GNU Lesser General Public
 * License along with this library; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301  USA
 *
 */

#ifndef SEQUENCEGMRCHUNK_H
#define SEQUENCEGMRCHUNK_H

#include <libcdsBasics.h>
#include <Sequence.h>
#include <BitSequence.h>
#include <BitSequenceBuilder.h>
#include <Permutation.h>
#include <PermutationBuilder.h>
#include <cassert>
#include <iostream>

namespace cds_static
{
	//using namespace std;

	/** Implementation of the Chunk of Golynski et al's rank/select
	 * data structure [1].
	 *
	 * [1] A. Golynski and I. Munro and S. Rao.
	 * Rank/select operations on large alphabets: a tool for text indexing.
	 * SODA 06.
	 *
	 * @author Francisco Claude
	 */
	class SequenceGMRChunk: public Sequence
	{
		public:
			/** Builds the structures needed for the chunk
			 * @param sequence sequence as array of unsigned integers.
			 * @param chunk_length length of the sequence.
			 * @param bmb bitmap builder for X (as named in the paper).
			 * @param pmb permutation builder for Pi (as named in the paper).
			 * */
			SequenceGMRChunk(uint * sequence, uint chunk_length, BitSequenceBuilder *bmb, PermutationBuilder *pmb);
			SequenceGMRChunk(const Array & sequence, BitSequenceBuilder *bmb, PermutationBuilder *pmb);

			/** Destroy the chunk */
			~SequenceGMRChunk();

			virtual uint access(size_t j) const;
			virtual size_t select(uint i, size_t j) const;
			virtual size_t rank(uint i, size_t j) const;
			virtual size_t getSize() const;
			virtual void save(ostream & fp) const;
			static SequenceGMRChunk * load(istream & fp);

		protected:
			/** Bitmap */
			BitSequence * X;
			/** Permutation */
			Permutation * permutation;
			/** Size of the alphabet */
			uint sigma;

			SequenceGMRChunk();
	};
};
#endif