/usr/include/libphylo/likelihoodComputationFactors.h is in rate4site 3.0.0-2.
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 | // $Id: likelihoodComputationFactors.h 962 2006-11-07 15:13:34Z privmane $
#ifndef ___LIKELIHOOD_COMPUTATION_FACTORS
#define ___LIKELIHOOD_COMPUTATION_FACTORS
#include "definitions.h"
#include "tree.h"
#include "computePijComponent.h"
#include "sequenceContainer.h"
#include "suffStatComponent.h"
namespace likelihoodComputation {
MDOUBLE getLOG_LofPos(const int pos, // with a site specific rate.
const tree& et,
const sequenceContainer& sc,
const stochasticProcess& sp,
const MDOUBLE gRate);
// add all the other functions to use factors...
};
#endif
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