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/*
kalign2_conservation.c
Released under GPL - see the 'COPYING' file
Copyright (C) 2006 Timo Lassmann <timolassmann@gmail.com>
This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation; either version 2 of the License, or
any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program; if not, write to the Free Software
Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
Please send bug reports, comments etc. to:
timolassmann@gmail.com
*/
#include <math.h>
#include "kalign2.h"
void entrophy(int* prof,int len)
{
int i,j;
float shannon = 0.0;
float log_two = log(2);
fprintf(stderr,"%f\n",log_two);
for ( i = 0; i < len; i++){
shannon = 0.0;
//prof[3] = 10;
//prof[23] += 10;
for ( j = 0; j < 23;j++){
if(prof[j]){
shannon += (float)prof[j]* log((float)prof[j]/(float)prof[23])/log_two;
// fprintf(stderr,"%f += %d/%d * %f\n",shannon,prof[j],prof[23],log((float)prof[j]/(float)prof[23])/log_two);
}
}
fprintf(stderr,"%f ",shannon);
if (prof[23] < 23){
shannon = -shannon / (log((float)prof[23])/log_two);
}else{
shannon = -shannon / (log((float)23)/log_two);
}
fprintf(stderr,"%f\n",shannon);
prof+=64;
}
}
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