ToPS
FactorableModelPrefixSumArray.hpp
00001 /*
00002  *       FactorableModelPrefixSumArray.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 FACTORABLE_PREFIX_SUM_ARRAY_HPP
00026 #define FACTORABLE_PREFIX_SUM_ARRAY_HPP
00027 
00028 #include "crossplatform.hpp"
00029 
00030 #include <boost/shared_ptr.hpp>
00031 #include "Sequence.hpp"
00032 #include "PrefixSumArray.hpp"
00033 #include "ProbabilisticModel.hpp"
00034 #include "util.hpp"
00035 
00036 namespace tops {
00037 
00039   class DLLEXPORT FactorableModelPrefixSumArray : public PrefixSumArray
00040   {
00041   private:
00042     ProbabilisticModel * _model;
00043     DoubleVector _alpha;
00044     DoubleVector _precision;
00045     Sequence _last;
00046   public:
00047     virtual ~FactorableModelPrefixSumArray(){};
00048     FactorableModelPrefixSumArray (ProbabilisticModel * model) : _model(model) {}
00050     virtual void initialize(const Sequence & s) ;
00051 
00053     virtual double compute(int begin, int end ) const ;
00054 
00055 
00056   };
00057 
00058   typedef boost::shared_ptr <FactorableModelPrefixSumArray> FactorableModelPrefixSumArrayPtr;
00059 }
00060 
00061 #endif