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00001 /* 00002 * HiddenMarkovModelCreator.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 HIDDEN_MARKOV_MODEL_CREATOR_HPP 00026 #define HIDDEN_MARKOV_MODEL_CREATOR_HPP 00027 00028 #include "crossplatform.hpp" 00029 00030 #include "ProbabilisticModelCreator.hpp" 00031 #include "ProbabilisticModel.hpp" 00032 #include <boost/shared_ptr.hpp> 00033 00034 namespace tops { 00036 class DLLEXPORT HiddenMarkovModelCreator : public ProbabilisticModelCreator 00037 { 00038 public: 00039 HiddenMarkovModelCreator() {} 00040 virtual ~HiddenMarkovModelCreator(){}; 00041 virtual ProbabilisticModelPtr create(ProbabilisticModelParameters & parameters) const ; 00042 00043 virtual std::string help() const 00044 { 00045 std::stringstream out; 00046 out << "\nUSAGE: " << std::endl; 00047 out << "Mandatory parameters: " << std::endl; 00048 out << "\tstate_names" << std::endl; 00049 out << "\tobservation_symbols" << std::endl; 00050 out << "\tinitial_probabilities" << std::endl; 00051 out << "\ttransitions" << std::endl; 00052 out << "\temission_probabilities" << std::endl; 00053 out << "Example: " << std::endl; 00054 out << "\tmodel_name = \"HiddenMarkovModel\"" << std::endl; 00055 out << "\tstate_names = (\"F\",\"L\")" << std::endl; 00056 out << "\tobservation_symbols = (\"1\",\"2\",\"3\",\"4\",\"5\",\"6\")" << std::endl; 00057 out << "\ttransitions = (\"F\" | \"F\": 0.7;" << std::endl; 00058 out << "\t \"L\" | \"F\": 0.3;" << std::endl; 00059 out << "\t \"F\" | \"L\": 0.3;" << std::endl; 00060 out << "\t \"L\" | \"L\": 0.7)" << std::endl; 00061 out << "\temissions = (\"1\" | \"F\": 0.166667;" << std::endl; 00062 out << "\t \"2\" | \"F\": 0.166667;" << std::endl; 00063 out << "\t \"3\" | \"F\": 0.166667;" << std::endl; 00064 out << "\t \"4\" | \"F\": 0.166667;" << std::endl; 00065 out << "\t \"5\" | \"F\": 0.166667;" << std::endl; 00066 out << "\t \"6\" | \"F\": 0.166667;" << std::endl; 00067 out << "\t \"1\" | \"L\": 0.5;" << std::endl; 00068 out << "\t \"2\" | \"L\": 0.1;" << std::endl; 00069 out << "\t \"3\" | \"L\": 0.1;" << std::endl; 00070 out << "\t \"4\" | \"L\": 0.1;" << std::endl; 00071 out << "\t \"5\" | \"L\": 0.1;" << std::endl; 00072 out << "\t \"6\" | \"L\": 0.1)" << std::endl; 00073 out << "\tinitial_probabilities = (\"F\": 0.5;" << std::endl; 00074 out << "\t \"L\": 0.5)" << std::endl; 00075 return out.str(); 00076 } 00077 00078 00079 }; 00080 typedef boost::shared_ptr < HiddenMarkovModelCreator> HiddenMarkovModelCreatorPtr; 00081 } 00082 00083 #endif
1.8.0