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/*
* common.h
*
* $Id$
*
*****************************************************************************
*
* Copyright (c) 2004, Luke Sheneman
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions
* are met:
*
* + Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
* + Redistributions in binary form must reproduce the above copyright
* notice, this list of conditions and the following disclaimer in
* the documentation and/or other materials provided with the
* distribution.
* + The names of its contributors may not be used to endorse or promote
* products derived from this software without specific prior
* written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "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 COPYRIGHT OWNER OR CONTRIBUTORS 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.
*
*****************************************************************************
*
* A header file filled with common definitions and simple inline functions
*
*****************************************************************************
*
* AUTHOR:
*
* Luke Sheneman
* sheneman@cs.uidaho.edu
*
*/
#ifndef _INC_NJ_COMMON_H_
#define _INC_NJ_COMMON_H_ 1
#include <math.h>
#include <float.h>
#define NJ_AMBIGUITY_CHAR 63 /* ? character */
/*
* this macro defines the number of cells in the diagonal matrix
* based on the number of taxa involved
*
*/
#define NJ_NCELLS(a) ( ((a)*(a+1))/2 )
/*
* NJ_MAP() -
*
* Thus function maps i, j coordinates to the correct offset into
* the distance matrix
*
*/
static inline
long int
NJ_MAP(long int i,
long int j,
long int ntaxa) {
return((i*(2*ntaxa-i-1))/2 + j);
}
static inline
int
NJ_FLT_EQ(float x,
float y) {
if(fabs(x - y)<FLT_EPSILON) {
return(1);
} else {
return(0);
}
}
static inline
int
NJ_FLT_LT(float x,
float y) {
if(NJ_FLT_EQ(x, y)) {
return(0);
} else {
if(x < y) {
return(1);
} else {
return(0);
}
}
}
static inline
int
NJ_FLT_GT(float x,
float y) {
if(NJ_FLT_EQ(x, y)) {
return(0);
} else {
if(x > y) {
return(1);
} else {
return(0);
}
}
}
#endif /* _INC_NJ_COMMON_H_ */
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