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33 lines
716 B
C++
33 lines
716 B
C++
// $Id: Nni.h 962 2006-11-07 15:13:34Z privmane $
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#ifndef ___NNI
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#define ___NNI
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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 "stochasticProcess.h"
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#include <vector>
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using namespace std;
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class NNI {
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public:
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explicit NNI(const sequenceContainer& sc,
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const stochasticProcess& sp,
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const Vdouble * weights);
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tree NNIstep(tree et);
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MDOUBLE bestScore(){ return _bestScore;}
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private:
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tree _bestTree;
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MDOUBLE _bestScore;
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const sequenceContainer& _sc;
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const stochasticProcess& _sp;
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const Vdouble * _weights;
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MDOUBLE evalTree(tree& et,const sequenceContainer& sd);
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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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};
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#endif
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