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/***************************************************************************
* Copyright (C) 2009 by Gunter Weiss, Bui Quang Minh, Arndt von Haeseler *
* minh.bui@univie.ac.at *
* *
* 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 *
* (at your option) 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. *
***************************************************************************/
#ifndef WHTEST_SUB_H
#define WHTEST_SUB_H
typedef struct _knoten {
struct _knoten *left;
struct _knoten *right;
struct _knoten *up;
double edge_length;
int label;
int ixlabel;
char bezeichnung[100];
} knoten;
extern knoten *baum;
extern int **seqData;
extern int simulation, nr_basen, taxa;
extern double alpha, beta;
extern char datei_name[100];
extern char ausgabe_report[200];
extern char ausgabe_nj_tree[200];
extern double **q_matrizen;
extern double **distance;
/*********************************/
void ReadDataSize ( char *datafile );
void ReadData ( char *datafile );
void AllocateMemory();
void FreeMemory();
void Compute_Hij();
void Compute_Qij_tij();
void Write_Qij(int a);
void ComputeNeighborJoiningTree();
void Save_Tree( knoten *P );
void FixDistance();
void Save_Distance(char *distfile, double **dist);
/*void Compute_Qm();*/
void Simulate_Sequences_q_hat();
void Compute_q_hat_pairwise();
/*void Compute_q_hat();*/
/************************************/
#endif
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