/*
    libmaus2
    Copyright (C) 2015 German Tischler

    This program is free software: you can redistribute it and/or modify
    it under the terms of the GNU General Public License as published by
    the Free Software Foundation, either version 3 of the License, or
    (at your option) any later version.

    This program 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 General Public License for more details.

    You should have received a copy of the GNU General Public License
    along with this program.  If not, see <http://www.gnu.org/licenses/>.
*/
#if ! defined(LIBMAUS2_DAZZLER_DB_TRACKANNO_HPP)
#define LIBMAUS2_DAZZLER_DB_TRACKANNO_HPP

#include <libmaus2/dazzler/db/TrackAnnoInterface.hpp>
#include <libmaus2/autoarray/AutoArray.hpp>

namespace libmaus2
{
	namespace dazzler
	{
		namespace db
		{
			template<typename _element_type>
			struct TrackAnno : public TrackAnnoInterface
			{
				typedef _element_type element_type;
				typedef TrackAnno<element_type> this_type;
				typedef std::unique_ptr<this_type> unique_ptr_type;
				typedef std::shared_ptr<this_type> shared_ptr_type;

				libmaus2::autoarray::AutoArray<element_type> A;

				TrackAnno()
				{
				}

				TrackAnno(uint64_t const n) : A(n) {}

				uint64_t operator[](uint64_t const i) const
				{
					if ( i < size() )
					{
						return A[i];
					}
					else
					{
						libmaus2::exception::LibMausException lme;
						lme.getStream() << "TrackAnno::operator[]: index " << i << " is out of range [" << 0 << "," << size() << ")" << std::endl;
						lme.finish();
						throw lme;
					}
				}

				uint64_t size() const
				{
					return A.size();
				}

				void shift(uint64_t const s)
				{
					for ( uint64_t i = 0; i < A.size(); ++i )
						A[i] -= s;
				}
			};
		}
	}
}
#endif
