parsePartition.h

/** 
 * PLL (version 1.0.0) a software library for phylogenetic inference
 * Copyright (C) 2013 Tomas Flouri and Alexandros Stamatakis
 *
 * Derived from 
 * RAxML-HPC, a program for sequential and parallel estimation of phylogenetic
 * trees by Alexandros Stamatakis
 *
 * 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 3 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, see <http://www.gnu.org/licenses/>.
 *
 * For any other enquiries send an Email to Tomas Flouri
 * Tomas.Flouri@h-its.org
 *
 * When publishing work that uses PLL please cite PLL
 * 
 * @file part.h
 */
#ifndef __pll_PART__
#define __pll_PART__
#include "queue.h"

typedef struct
{
  int start;
  int end;
  int stride;
} pllPartitionRegion;

typedef struct 
{
  char * partitionName;
  char * partitionModel;
  int protModels;
  int protUseEmpiricalFreqs;
  int dataType;
  int ascBias;
  int optimizeBaseFrequencies;
  pllQueue * regionList;
} pllPartitionInfo;
#endif