text: /*
   *                             The MIT License
   *
   * Wavefront Alignments Algorithms
   * Copyright (c) 2017 by Santiago Marco-Sola  <santiagomsola@gmail.com>
   *
   * This file is part of Wavefront Alignments Algorithms.
   *
   * 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.
   *
   * PROJECT: Wavefront Alignments Algorithms
   * AUTHOR(S): Santiago Marco-Sola <santiagomsola@gmail.com>
   * DESCRIPTION: DNA text encoding/decoding utils
   */
  
  
  #pragma once
  
  #include "WFA/utils/commons.h"
  
  #ifdef WFA_NAMESPACE
  namespace wfa {
  #endif
  
  /*
   * Range of DNA Nucleotides
   */
  #define DNA_RANGE           4
  #define DNA_EXTENDED_RANGE  5
  
  #define DNA_RANGE_BITS 2
  
  /*
   * DNA Nucleotides
   */
  #define DNA_CHAR_A 'A'
  #define DNA_CHAR_C 'C'
  #define DNA_CHAR_G 'G'
  #define DNA_CHAR_T 'T'
  #define DNA_CHAR_N 'N'
  
  /*
   * Encoded DNA Nucleotides
   */
  #define ENC_DNA_CHAR_A 0
  #define ENC_DNA_CHAR_C 1
  #define ENC_DNA_CHAR_G 2
  #define ENC_DNA_CHAR_T 3
  #define ENC_DNA_CHAR_N 4
  
  /*
   * Translation tables
   */
  extern const uint8_t dna_encode_table[256];
  extern const char dna_decode_table[DNA_EXTENDED_RANGE];
  
  /*
   * Translation functions
   */
  #define dna_encode(character)     (dna_encode_table[(int)(character)])
  #define dna_decode(enc_char)      (dna_decode_table[(int)(enc_char)])
  
  #ifdef WFA_NAMESPACE
  }
  #endif
  