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/* automatically generated by rust-bindgen 0.72.0 and slightly edited */
pub const LIBSAIS_VERSION_MAJOR: u32 = 2;
pub const LIBSAIS_VERSION_MINOR: u32 = 10;
pub const LIBSAIS_VERSION_PATCH: u32 = 3;
pub const LIBSAIS_VERSION_STRING: &str = "2.10.3";
unsafe extern "C" {
/// Creates the libsais context that allows reusing allocated memory with each libsais operation.In multi-threaded environments, use one context per thread for parallel executions.
///
/// # Returns
///
/// the libsais context, NULL otherwise.
pub fn libsais_create_ctx() -> *mut ::std::os::raw::c_void;
/// Creates the libsais context that allows reusing allocated memory with each parallel libsais operation using OpenMP.In multi-threaded environments, use one context per thread for parallel executions.
///
/// # Arguments
///
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// the libsais context, NULL otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_create_ctx_omp(threads: i32) -> *mut ::std::os::raw::c_void;
/// Destroys the libsass context and free previusly allocated memory.
///
/// # Arguments
///
/// * `ctx` - The libsais context (can be NULL).
pub fn libsais_free_ctx(ctx: *mut ::std::os::raw::c_void);
/// Constructs the suffix array of a given string.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of SA array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais(T: *const u8, SA: *mut i32, n: i32, fs: i32, freq: *mut i32) -> i32;
/// Constructs the generalized suffix array (GSA) of given string set.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string set using 0 as separators (T[n-1] must be 0).
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the given string set.
/// * `fs` - The extra space available at the end of SA array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_gsa(T: *const u8, SA: *mut i32, n: i32, fs: i32, freq: *mut i32) -> i32;
/// Constructs the suffix array of a given integer array.Note, during construction input array will be modified, but restored at the end if no errors occurred.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input integer array.
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the integer array.
/// * `k` - The alphabet size of the input integer array.
/// * `fs` - Extra space available at the end of SA array (can be 0, but 4k or better 6k is recommended for optimal performance).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_int(T: *mut i32, SA: *mut i32, n: i32, k: i32, fs: i32) -> i32;
/// Constructs the suffix array of a given string using libsais context.
///
/// # Arguments
///
/// * `ctx` - The libsais context.
/// * `T` - [0..n-1] The input string.
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of SA array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_ctx(
ctx: *const ::std::os::raw::c_void,
T: *const u8,
SA: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
) -> i32;
/// Constructs the generalized suffix array (GSA) of given string set using libsais context.
///
/// # Arguments
///
/// * `ctx` - The libsais context.
/// * `T` - [0..n-1] The input string set using 0 as separators (T[n-1] must be 0).
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the given string set.
/// * `fs` - The extra space available at the end of SA array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_gsa_ctx(
ctx: *const ::std::os::raw::c_void,
T: *const u8,
SA: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
) -> i32;
/// Constructs the suffix array of a given string in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of SA array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_omp(
T: *const u8,
SA: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
threads: i32,
) -> i32;
/// Constructs the generalized suffix array (GSA) of given string set in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string set using 0 as separators (T[n-1] must be 0).
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the given string set.
/// * `fs` - The extra space available at the end of SA array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_gsa_omp(
T: *const u8,
SA: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
threads: i32,
) -> i32;
/// Constructs the suffix array of a given integer array in parallel using OpenMP.Note, during construction input array will be modified, but restored at the end if no errors occurred.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input integer array.
/// * `SA` - [0..n-1+fs] The output array of suffixes.
/// * `n` - The length of the integer array.
/// * `k` - The alphabet size of the input integer array.
/// * `fs` - Extra space available at the end of SA array (can be 0, but 4k or better 6k is recommended for optimal performance).
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_int_omp(T: *mut i32, SA: *mut i32, n: i32, k: i32, fs: i32, threads: i32)
-> i32;
/// Constructs the burrows-wheeler transformed string (BWT) of a given string.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n-1+fs] The temporary array.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of A array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
///
/// # Returns
///
/// The primary index if no error occurred, -1 or -2 otherwise.
pub fn libsais_bwt(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
) -> i32;
/// Constructs the burrows-wheeler transformed string (BWT) of a given string with auxiliary indexes.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n-1+fs] The temporary array.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of A array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
/// * `r` - The sampling rate for auxiliary indexes (must be power of 2).
/// * `I` - [0..(n-1)/r] The output auxiliary indexes.
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_bwt_aux(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
r: i32,
I: *mut i32,
) -> i32;
/// Constructs the burrows-wheeler transformed string (BWT) of a given string using libsais context.
///
/// # Arguments
///
/// * `ctx` - The libsais context.
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n-1+fs] The temporary array.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of A array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
///
/// # Returns
///
/// The primary index if no error occurred, -1 or -2 otherwise.
pub fn libsais_bwt_ctx(
ctx: *const ::std::os::raw::c_void,
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
) -> i32;
/// Constructs the burrows-wheeler transformed string (BWT) of a given string with auxiliary indexes using libsais context.
///
/// # Arguments
///
/// * `ctx` - The libsais context.
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n-1+fs] The temporary array.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of A array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
/// * `r` - The sampling rate for auxiliary indexes (must be power of 2).
/// * `I` - [0..(n-1)/r] The output auxiliary indexes.
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_bwt_aux_ctx(
ctx: *const ::std::os::raw::c_void,
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
r: i32,
I: *mut i32,
) -> i32;
/// Constructs the burrows-wheeler transformed string (BWT) of a given string in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n-1+fs] The temporary array.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of A array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// The primary index if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_bwt_omp(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
threads: i32,
) -> i32;
/// Constructs the burrows-wheeler transformed string (BWT) of a given string with auxiliary indexes in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n-1+fs] The temporary array.
/// * `n` - The length of the given string.
/// * `fs` - The extra space available at the end of A array (0 should be enough for most cases).
/// * `freq` - [0..255] The output symbol frequency table (can be NULL).
/// * `r` - The sampling rate for auxiliary indexes (must be power of 2).
/// * `I` - [0..(n-1)/r] The output auxiliary indexes.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_bwt_aux_omp(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
fs: i32,
freq: *mut i32,
r: i32,
I: *mut i32,
threads: i32,
) -> i32;
/// Creates the libsais reverse BWT context that allows reusing allocated memory with each libsais_unbwt_* operation.In multi-threaded environments, use one context per thread for parallel executions.
///
/// # Returns
///
/// the libsais context, NULL otherwise.
pub fn libsais_unbwt_create_ctx() -> *mut ::std::os::raw::c_void;
/// Creates the libsais reverse BWT context that allows reusing allocated memory with each parallel libsais_unbwt_* operation using OpenMP.In multi-threaded environments, use one context per thread for parallel executions.
///
/// # Arguments
///
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// the libsais context, NULL otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_unbwt_create_ctx_omp(threads: i32) -> *mut ::std::os::raw::c_void;
/// Destroys the libsass reverse BWT context and free previusly allocated memory.
///
/// # Arguments
///
/// * `ctx` - The libsais context (can be NULL).
pub fn libsais_unbwt_free_ctx(ctx: *mut ::std::os::raw::c_void);
/// Constructs the original string from a given burrows-wheeler transformed string (BWT) with primary index.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n] The temporary array (NOTE, temporary array must be n + 1 size).
/// * `n` - The length of the given string.
/// * `freq` - [0..255] The input symbol frequency table (can be NULL).
/// * `i` - The primary index.
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_unbwt(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
freq: *const i32,
i: i32,
) -> i32;
/// Constructs the original string from a given burrows-wheeler transformed string (BWT) with primary index using libsais reverse BWT context.
///
/// # Arguments
///
/// * `ctx` - The libsais reverse BWT context.
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n] The temporary array (NOTE, temporary array must be n + 1 size).
/// * `n` - The length of the given string.
/// * `freq` - [0..255] The input symbol frequency table (can be NULL).
/// * `i` - The primary index.
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_unbwt_ctx(
ctx: *const ::std::os::raw::c_void,
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
freq: *const i32,
i: i32,
) -> i32;
/// Constructs the original string from a given burrows-wheeler transformed string (BWT) with auxiliary indexes.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n] The temporary array (NOTE, temporary array must be n + 1 size).
/// * `n` - The length of the given string.
/// * `freq` - [0..255] The input symbol frequency table (can be NULL).
/// * `r` - The sampling rate for auxiliary indexes (must be power of 2).
/// * `I` - [0..(n-1)/r] The input auxiliary indexes.
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_unbwt_aux(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
freq: *const i32,
r: i32,
I: *const i32,
) -> i32;
/// Constructs the original string from a given burrows-wheeler transformed string (BWT) with auxiliary indexes using libsais reverse BWT context.
///
/// # Arguments
///
/// * `ctx` - The libsais reverse BWT context.
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n] The temporary array (NOTE, temporary array must be n + 1 size).
/// * `n` - The length of the given string.
/// * `freq` - [0..255] The input symbol frequency table (can be NULL).
/// * `r` - The sampling rate for auxiliary indexes (must be power of 2).
/// * `I` - [0..(n-1)/r] The input auxiliary indexes.
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
pub fn libsais_unbwt_aux_ctx(
ctx: *const ::std::os::raw::c_void,
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
freq: *const i32,
r: i32,
I: *const i32,
) -> i32;
/// Constructs the original string from a given burrows-wheeler transformed string (BWT) with primary index in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n] The temporary array (NOTE, temporary array must be n + 1 size).
/// * `n` - The length of the given string.
/// * `freq` - [0..255] The input symbol frequency table (can be NULL).
/// * `i` - The primary index.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_unbwt_omp(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
freq: *const i32,
i: i32,
threads: i32,
) -> i32;
/// Constructs the original string from a given burrows-wheeler transformed string (BWT) with auxiliary indexes in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `U` - [0..n-1] The output string (can be T).
/// * `A` - [0..n] The temporary array (NOTE, temporary array must be n + 1 size).
/// * `n` - The length of the given string.
/// * `freq` - [0..255] The input symbol frequency table (can be NULL).
/// * `r` - The sampling rate for auxiliary indexes (must be power of 2).
/// * `I` - [0..(n-1)/r] The input auxiliary indexes.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 or -2 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_unbwt_aux_omp(
T: *const u8,
U: *mut u8,
A: *mut i32,
n: i32,
freq: *const i32,
r: i32,
I: *const i32,
threads: i32,
) -> i32;
/// Constructs the permuted longest common prefix array (PLCP) of a given string and a suffix array.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `SA` - [0..n-1] The input suffix array.
/// * `PLCP` - [0..n-1] The output permuted longest common prefix array.
/// * `n` - The length of the string and the suffix array.
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
pub fn libsais_plcp(T: *const u8, SA: *const i32, PLCP: *mut i32, n: i32) -> i32;
/// Constructs the permuted longest common prefix array (PLCP) of a given string set and a generalized suffix array (GSA).
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string set using 0 as separators (T[n-1] must be 0).
/// * `SA` - [0..n-1] The input generalized suffix array.
/// * `PLCP` - [0..n-1] The output permuted longest common prefix array.
/// * `n` - The length of the string set and the generalized suffix array.
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
pub fn libsais_plcp_gsa(T: *const u8, SA: *const i32, PLCP: *mut i32, n: i32) -> i32;
/// Constructs the permuted longest common prefix array (PLCP) of a integer array and a suffix array.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input integer array.
/// * `SA` - [0..n-1] The input suffix array.
/// * `PLCP` - [0..n-1] The output permuted longest common prefix array.
/// * `n` - The length of the integer array and the suffix array.
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
pub fn libsais_plcp_int(T: *const i32, SA: *const i32, PLCP: *mut i32, n: i32) -> i32;
/// Constructs the longest common prefix array (LCP) of a given permuted longest common prefix array (PLCP) and a suffix array.
///
/// # Arguments
///
/// * `PLCP` - [0..n-1] The input permuted longest common prefix array.
/// * `SA` - [0..n-1] The input suffix array or generalized suffix array (GSA).
/// * `LCP` - [0..n-1] The output longest common prefix array (can be SA).
/// * `n` - The length of the permuted longest common prefix array and the suffix array.
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
pub fn libsais_lcp(PLCP: *const i32, SA: *const i32, LCP: *mut i32, n: i32) -> i32;
/// Constructs the permuted longest common prefix array (PLCP) of a given string and a suffix array in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string.
/// * `SA` - [0..n-1] The input suffix array.
/// * `PLCP` - [0..n-1] The output permuted longest common prefix array.
/// * `n` - The length of the string and the suffix array.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_plcp_omp(
T: *const u8,
SA: *const i32,
PLCP: *mut i32,
n: i32,
threads: i32,
) -> i32;
/// Constructs the permuted longest common prefix array (PLCP) of a given string set and a generalized suffix array (GSA) in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input string set using 0 as separators (T[n-1] must be 0).
/// * `SA` - [0..n-1] The input generalized suffix array.
/// * `PLCP` - [0..n-1] The output permuted longest common prefix array.
/// * `n` - The length of the string set and the generalized suffix array.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_plcp_gsa_omp(
T: *const u8,
SA: *const i32,
PLCP: *mut i32,
n: i32,
threads: i32,
) -> i32;
/// Constructs the permuted longest common prefix array (PLCP) of a given integer array and a suffix array in parallel using OpenMP.
///
/// # Arguments
///
/// * `T` - [0..n-1] The input integer array.
/// * `SA` - [0..n-1] The input suffix array.
/// * `PLCP` - [0..n-1] The output permuted longest common prefix array.
/// * `n` - The length of the integer array and the suffix array.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_plcp_int_omp(
T: *const i32,
SA: *const i32,
PLCP: *mut i32,
n: i32,
threads: i32,
) -> i32;
/// Constructs the longest common prefix array (LCP) of a given permuted longest common prefix array (PLCP) and a suffix array in parallel using OpenMP.
///
/// # Arguments
///
/// * `PLCP` - [0..n-1] The input permuted longest common prefix array.
/// * `SA` - [0..n-1] The input suffix array or generalized suffix array (GSA).
/// * `LCP` - [0..n-1] The output longest common prefix array (can be SA).
/// * `n` - The length of the permuted longest common prefix array and the suffix array.
/// * `threads` - The number of OpenMP threads to use (can be 0 for OpenMP default).
///
/// # Returns
///
/// 0 if no error occurred, -1 otherwise.
#[cfg(feature = "openmp")]
pub fn libsais_lcp_omp(
PLCP: *const i32,
SA: *const i32,
LCP: *mut i32,
n: i32,
threads: i32,
) -> i32;
}