/*
* Copyright 2011, Ben Langmead <langmea@cs.jhu.edu>
*
* This file is part of Bowtie 2.
*
* Bowtie 2 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.
*
* Bowtie 2 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 Bowtie 2. If not, see <http://www.gnu.org/licenses/>.
*/
#ifndef BOWTIE_INDEX_TYPES_H
#define BOWTIE_INDEX_TYPES_H
#ifdef BOWTIE_64BIT_INDEX
#define OFF_MASK 0xffffffffffffffff
#define OFF_LEN_MASK 0xc000000000000000
#define LS_SIZE 0x100000000000000
#define OFF_SIZE 8
typedef uint64_t TIndexOffU;
typedef int64_t TIndexOff;
#else
#define OFF_MASK 0xffffffff
#define OFF_LEN_MASK 0xc0000000
#define LS_SIZE 0x10000000
#define OFF_SIZE 4
typedef uint32_t TIndexOffU;
typedef int TIndexOff;
#endif /* BOWTIE_64BIT_INDEX */
extern const std::string gEbwt_ext;
#endif /* BOWTIE_INDEX_TYPES_H */