/*
* 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/>.
*/
#include "mask.h"
// 5-bit pop count
int alts5[32] = {
0, 1, 1, 2, 1, 2, 2, 3,
1, 2, 2, 3, 2, 3, 3, 4,
1, 2, 2, 3, 2, 3, 3, 4,
2, 3, 3, 4, 3, 4, 4, 5
};
// Index of lowest set bit
int firsts5[32] = {
-1, 0, 1, 0, 2, 0, 1, 0,
3, 0, 1, 0, 2, 0, 1, 0,
4, 0, 1, 0, 2, 0, 1, 0,
3, 0, 1, 0, 2, 0, 1, 0
};