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Author: y-256

CHANGELOG.md

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+# libdivsufsort Change Log
+
+See full changelog at: https://github.com/y-256/libdivsufsort/commits
+
+## [2.0.1] - 2010-11-11
+### Fixed
+* Wrong variable used in `divbwt` function
+* Enclose some string variables with double quotation marks in include/CMakeLists.txt
+* Fix typo in include/CMakeLists.txt
+
+## 2.0.0 - 2008-08-23
+### Changed
+* Switch the build system to [CMake](http://www.cmake.org/)
+* Improve the performance of the suffix-sorting algorithm
+
+### Added
+* OpenMP support
+* 64-bit version of divsufsort
+
+[Unreleased]: https://github.com/y-256/libdivsufsort/compare/2.0.1...HEAD
+[2.0.1]: https://github.com/y-256/libdivsufsort/compare/2.0.0...2.0.1

README.md

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+# libdivsufsort
+
+libdivsufsort is a software library that implements a lightweight suffix array construction algorithm.
+
+## News
+* 2015-03-21: The project has moved from [Google Code](http://code.google.com/p/libdivsufsort/) to [GitHub](https://github.com/y-256/libdivsufsort)
+
+## Introduction
+This library provides a simple and an efficient C API to construct a suffix array and a Burrows-Wheeler transformed string from a given string over a constant-size alphabet.
+The algorithm runs in O(n log n) worst-case time using only 5n+O(1) bytes of memory space, where n is the length of
+the string.
+
+## Build requirements
+* An ANSI C Compiler (e.g. GNU GCC)
+* [CMake](http://www.cmake.org/ "CMake") version 2.4.2 or newer
+* CMake-supported build tool
+
+## Building on GNU/Linux
+1. Get the source code from GitHub. You can either
+    * use git to clone the repository
+    ```
+    git clone https://github.com/y-256/libdivsufsort.git
+    ```
+    * or download a [zip file](../../archive/master.zip) directly
+2. Create a `build` directory in the package source directory.
+```shell
+$ cd libdivsufsort
+$ mkdir build
+$ cd build
+```
+3. Configure the package for your system.
+If you want to install to a different location,  change the -DCMAKE_INSTALL_PREFIX option.
+```shell
+$ cmake -DCMAKE_BUILD_TYPE="Release" \
+-DCMAKE_INSTALL_PREFIX="/usr/local" ..
+```
+4. Compile the package.
+```shell
+$ make
+```
+5. (Optional) Install the library and header files.
+```shell
+$ sudo make install
+```
+
+## API
+```c
+/* Data types */
+typedef int32_t saint_t;
+typedef int32_t saidx_t;
+typedef uint8_t sauchar_t;
+
+/*
+ * Constructs the suffix array of a given string.
+ * @param T[0..n-1] The input string.
+ * @param SA[0..n-1] The output array or suffixes.
+ * @param n The length of the given string.
+ * @return 0 if no error occurred, -1 or -2 otherwise.
+ */
+saint_t
+divsufsort(const sauchar_t *T, saidx_t *SA, saidx_t n);
+
+/*
+ * 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.
+ * @return The primary index if no error occurred, -1 or -2 otherwise.
+ */
+saidx_t
+divbwt(const sauchar_t *T, sauchar_t *U, saidx_t *A, saidx_t n);
+```
+
+## Example Usage
+```c
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+
+#include <divsufsort.h>
+
+int main() {
+    // intput data
+    char *Text = "abracadabra";
+    int n = strlen(Text);
+    int i, j;
+
+    // allocate
+    int *SA = (int *)malloc(n * sizeof(int));
+
+    // sort
+    divsufsort((unsigned char *)Text, SA, n);
+
+    // output
+    for(i = 0; i < n; ++i) {
+        printf("SA[%2d] = %2d: ", i, SA[i]);
+        for(j = SA[i]; j < n; ++j) {
+            printf("%c", Text[j]);
+        }
+        printf("$\n");
+    }
+
+    // deallocate
+    free(SA);
+
+    return 0;
+}
+```
+See the [examples](examples) directory for a few other examples.
+
+## Benchmarks
+See [Benchmarks](https://github.com/y-256/libdivsufsort/blob/wiki/SACA_Benchmarks.md) page for details.
+
+## License
+libdivsufsort is released under the [MIT license](LICENSE "MIT license").
+> The MIT License (MIT)
+>
+> Copyright (c) 2003 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.
+
+## Author
+* Yuta Mori