ToPS
TrainPhasedMarkovChain.hpp
00001 /*
00002  *       TrainPhasedMarkovChain.hpp
00003  *
00004  *       Copyright 2011 Andre Yoshiaki Kashiwabara <akashiwabara@usp.br>
00005  *                      Ígor Bonádio <ibonadio@ime.usp.br>
00006  *                      Vitor Onuchic <vitoronuchic@gmail.com>
00007  *                      Alan Mitchell Durham <aland@usp.br>
00008  *
00009  *       This program is free software; you can redistribute it and/or modify
00010  *       it under the terms of the GNU  General Public License as published by
00011  *       the Free Software Foundation; either version 3 of the License, or
00012  *       (at your option) any later version.
00013  *
00014  *       This program is distributed in the hope that it will be useful,
00015  *       but WITHOUT ANY WARRANTY; without even the implied warranty of
00016  *       MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
00017  *       GNU General Public License for more details.
00018  *
00019  *       You should have received a copy of the GNU General Public License
00020  *       along with this program; if not, write to the Free Software
00021  *       Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
00022  *       MA 02110-1301, USA.
00023  */
00024 
00025 #ifndef TRAIN_PHASED_MARKOV_CHAIN_HPP
00026 #define TRAIN_PHASED_MARKOV_CHAIN_HPP
00027 
00028 #include "crossplatform.hpp"
00029 
00030 #include "ProbabilisticModel.hpp"
00031 #include "ProbabilisticModelCreator.hpp"
00032 #include "ConfigurationReader.hpp"
00033 
00034 
00035 namespace tops {
00036 
00038   class DLLEXPORT TrainPhasedMarkovChain : public ProbabilisticModelCreator {
00039   public:
00040     TrainPhasedMarkovChain () {}
00041     virtual ~TrainPhasedMarkovChain () {};
00043 
00044     virtual ProbabilisticModelPtr create( ProbabilisticModelParameters & parameters) const ;
00045     virtual ProbabilisticModelPtr create( ProbabilisticModelParameters & parameters, double & loglikelihood, int & sample_size) const;
00046 
00047 
00048         virtual std::string help() const {
00049           std::string s;
00050 
00051           return s;
00052         }
00053   };
00054   typedef boost::shared_ptr <TrainPhasedMarkovChain> TrainPhasedMarkovChainPtr ;
00055 };
00056 
00057 
00058 #endif