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41 lines
929 B
C++
41 lines
929 B
C++
// $Id: NNiSep.h 962 2006-11-07 15:13:34Z privmane $
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#ifndef ___NNI_SEP
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#define ___NNI_SEP
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#include "definitions.h"
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#include "tree.h"
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#include "sequenceContainer.h"
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#include "definitions.h"
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#include "stochasticProcess.h"
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#include <vector>
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using namespace std;
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class NNiSep {
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public:
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explicit NNiSep(vector<sequenceContainer>& sc,
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vector<stochasticProcess>& sp,
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const vector<Vdouble *> * weights,
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vector<char>* nodeNotToSwap);
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vector<tree> NNIstep(vector<tree> et);
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MDOUBLE bestScore(){ return _bestScore;}
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void setOfstream(ostream* out);
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private:
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vector<char>* _nodeNotToSwap;
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vector<tree> _bestTrees;
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MDOUBLE _bestScore;
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vector<sequenceContainer>& _sc;
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vector<stochasticProcess>& _sp;
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const vector<Vdouble *> * _weights;
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MDOUBLE evalTrees(vector<tree>& et);
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tree NNIswap1(tree et,tree::nodeP mynode);
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tree NNIswap2(tree et,tree::nodeP mynode);
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int _treeEvaluated;
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ostream* _out;
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};
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#endif
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