/*****************************************************************************
#   Copyright (C) 1994-2008 by David Gordon.
#   All rights reserved.                           
#                                                                           
#   This software is part of a beta-test version of the Consed/Autofinish
#   package.  It should not be redistributed or
#   used for any commercial purpose, including commercially funded
#   sequencing, without written permission from the author and the
#   University of Washington.
#   
#   This software is provided ``AS IS'' and any express or implied
#   warranties, including, but not limited to, the implied warranties of
#   merchantability and fitness for a particular purpose, are disclaimed.
#   In no event shall the authors or the University of Washington be
#   liable for any direct, indirect, incidental, special, exemplary, or
#   consequential damages (including, but not limited to, procurement of
#   substitute goods or services; loss of use, data, or profits; or
#   business interruption) however caused and on any theory of liability,
#   whether in contract, strict liability, or tort (including negligence
#   or otherwise) arising in any way out of the use of this software, even
#   if advised of the possibility of such damage.
#
#   Building Consed from source is error prone and not simple which is
#   why I provide executables.  Due to time limitations I cannot
#   provide any assistance in building Consed.  Even if you do not
#   modify the source, you may introduce errors due to using a
#   different version of the compiler, a different version of motif,
#   different versions of other libraries than I used, etc.  For this
#   reason, if you discover Consed bugs, I can only offer help with
#   those bugs if you first reproduce those bugs with an executable
#   provided by me--not an executable you have built.
# 
#   Modifying Consed is also difficult.  Although Consed is modular,
#   some modules are used by many other modules.  Thus making a change
#   in one place can have unforeseen effects on many other features.
#   It may takes months for you to notice these other side-effects
#   which may not seen connected at all.  It is not feasable for me to
#   provide help with modifying Consed sources because of the
#   potentially huge amount of time involved.
#
#*****************************************************************************/
#define DEFINE_COMPLEMENT_BASE_TABLE
#include    "cComplementBaseTable.h"


void setComplementBaseTable() {

   for( int n = 0; n <= 255; ++n )
      cComplementBaseTable[n] =  n;

   cComplementBaseTable[ 'A' ] = 'T';
   cComplementBaseTable[ 'C' ] = 'G';
   cComplementBaseTable[ 'G' ] = 'C';
   cComplementBaseTable[ 'T' ] = 'A';
   cComplementBaseTable[ 'a' ] = 't';
   cComplementBaseTable[ 'c' ] = 'g';
   cComplementBaseTable[ 'g' ] = 'c';
   cComplementBaseTable[ 't' ] = 'a';

   cComplementBaseTable[ 'r' ] = 'y';
   cComplementBaseTable[ 'R' ] = 'Y';

   cComplementBaseTable[ 'y' ] = 'r';
   cComplementBaseTable[ 'Y' ] = 'R';

   cComplementBaseTable[ 'm' ] = 'k';
   cComplementBaseTable[ 'M' ] = 'K';

   cComplementBaseTable[ 'k' ] = 'm';
   cComplementBaseTable[ 'K' ] = 'M';

   cComplementBaseTable[ 's' ] = 's';
   cComplementBaseTable[ 'S' ] = 'S';

   cComplementBaseTable[ 'w' ] = 'w';
   cComplementBaseTable[ 'W' ] = 'W';

   cComplementBaseTable[ 'd' ] = 'h';
   cComplementBaseTable[ 'D' ] = 'H';

   cComplementBaseTable[ 'h' ] = 'd';
   cComplementBaseTable[ 'H' ] = 'D';

   cComplementBaseTable[ 'b' ] = 'v';
   cComplementBaseTable[ 'B' ] = 'V';

   cComplementBaseTable[ 'v' ] = 'b';
   cComplementBaseTable[ 'V' ] = 'B';

}