| /* |
| * divsufsort.h for libdivsufsort-lite |
| * Copyright (c) 2003-2008 Yuta Mori All Rights Reserved. |
| * |
| * Permission is hereby granted, free of charge, to any person |
| * obtaining a copy of this software and associated documentation |
| * files (the "Software"), to deal in the Software without |
| * restriction, including without limitation the rights to use, |
| * copy, modify, merge, publish, distribute, sublicense, and/or sell |
| * copies of the Software, and to permit persons to whom the |
| * Software is furnished to do so, subject to the following |
| * conditions: |
| * |
| * The above copyright notice and this permission notice shall be |
| * included in all copies or substantial portions of the Software. |
| * |
| * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, |
| * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES |
| * OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND |
| * NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT |
| * HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, |
| * WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING |
| * FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR |
| * OTHER DEALINGS IN THE SOFTWARE. |
| */ |
| |
| #ifndef _DIVSUFSORT_H |
| #define _DIVSUFSORT_H 1 |
| |
| #ifdef __cplusplus |
| extern "C" { |
| #endif /* __cplusplus */ |
| |
| |
| /*- Prototypes -*/ |
| |
| /** |
| * Constructs the suffix array of a given string. |
| * @param T [0..n-1] The input string. |
| * @param SA [0..n-1] The output array of suffixes. |
| * @param n The length of the given string. |
| * @param openMP enables OpenMP optimization. |
| * @return 0 if no error occurred, -1 or -2 otherwise. |
| */ |
| int |
| divsufsort(const unsigned char *T, int *SA, int n, int openMP); |
| |
| /** |
| * Constructs the burrows-wheeler transformed string of a given string. |
| * @param T [0..n-1] The input string. |
| * @param U [0..n-1] The output string. (can be T) |
| * @param A [0..n-1] The temporary array. (can be NULL) |
| * @param n The length of the given string. |
| * @param num_indexes The length of secondary indexes array. (can be NULL) |
| * @param indexes The secondary indexes array. (can be NULL) |
| * @param openMP enables OpenMP optimization. |
| * @return The primary index if no error occurred, -1 or -2 otherwise. |
| */ |
| int |
| divbwt(const unsigned char *T, unsigned char *U, int *A, int n, unsigned char * num_indexes, int * indexes, int openMP); |
| |
| |
| #ifdef __cplusplus |
| } /* extern "C" */ |
| #endif /* __cplusplus */ |
| |
| #endif /* _DIVSUFSORT_H */ |