website/archive/binaries/linux_x86/fasta34/smith_waterman_sse2.h

   1 /******************************************************************
   2   Copyright 2006 by Michael Farrar.  All rights reserved.
   3   This program may not be sold or incorporated into a commercial product,
   4   in whole or in part, without written consent of Michael Farrar.  For
   5   further information regarding permission for use or reproduction, please
   6   contact: Michael Farrar at farrar.michael@gmail.com.
   7 *******************************************************************/
   8
   9 /*
  10   Written by Michael Farrar, 2006.
  11   Please send bug reports and/or suggestions to farrar.michael@gmail.com.
  12 */
  13
  14 #ifndef SMITH_WATERMAN_SSE2_H
  15 #define SMITH_WATERMAN_SSE2_H
  16
  17 int
  18 smith_waterman_sse2_word(const unsigned char *     query_sequence,
  19                          unsigned short *    query_profile_word,
  20                          const int                 query_length,
  21                          const unsigned char *     db_sequence,
  22                          const int                 db_length,
  23                          unsigned short      gap_open,
  24                          unsigned short      gap_extend,
  25                          struct f_struct *   f_str);
  26
  27
  28 int
  29 smith_waterman_sse2_byte(const unsigned char *     query_sequence,
  30                          unsigned char *     query_profile_byte,
  31                          const int                 query_length,
  32                          const unsigned char *     db_sequence,
  33                          const int                 db_length,
  34                          unsigned char       bias,
  35                          unsigned char       gap_open,
  36                          unsigned char       gap_extend,
  37                          struct f_struct *   f_str);
  38
  39 #endif /* SMITH_WATERMAN_SSE2_H */