.TH "beagle::cpu::BeagleCPU4StateImpl" 3 "Fri May 25 2012" "Version 1.0.0" "HMSBEAGLE" \" -*- nroff -*-
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.SH NAME
beagle::cpu::BeagleCPU4StateImpl \- 
.SH SYNOPSIS
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.PP
.PP
Inherits \fBbeagle::cpu::BeagleCPUImpl< BEAGLE_CPU_GENERIC >\fP\&.
.SS "Public Member Functions"

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.ti -1c
.RI "virtual const char * \fBgetName\fP ()"
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.RI "virtual void \fBcalcStatesStates\fP (REALTYPE *destP, const int *states1, const REALTYPE *matrices1, const int *states2, const REALTYPE *matrices2)"
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.RI "virtual void \fBcalcStatesPartials\fP (REALTYPE *destP, const int *states1, const REALTYPE *matrices1, const REALTYPE *partials2, const REALTYPE *matrices2)"
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.RI "virtual void \fBcalcPartialsPartials\fP (REALTYPE *destP, const REALTYPE *partials1, const REALTYPE *matrices1, const REALTYPE *partials2, const REALTYPE *matrices2)"
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.ti -1c
.RI "virtual int \fBcalcRootLogLikelihoods\fP (const int bufferIndex, const int categoryWeightsIndex, const int stateFrequenciesIndex, const int scalingFactorsIndex, double *outSumLogLikelihood)"
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.RI "virtual int \fBcalcRootLogLikelihoodsMulti\fP (const int *bufferIndices, const int *categoryWeightsIndices, const int *stateFrequenciesIndices, const int *scaleBufferIndices, int count, double *outSumLogLikelihood)"
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.RI "virtual int \fBcalcEdgeLogLikelihoods\fP (const int parentBufferIndex, const int childBufferIndex, const int probabilityIndex, const int categoryWeightsIndex, const int stateFrequenciesIndex, const int scalingFactorsIndex, double *outSumLogLikelihood)"
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.RI "virtual void \fBcalcStatesStatesFixedScaling\fP (REALTYPE *destP, const int *child0States, const REALTYPE *child0TransMat, const int *child1States, const REALTYPE *child1TransMat, const REALTYPE *scaleFactors)"
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.RI "virtual void \fBcalcStatesPartialsFixedScaling\fP (REALTYPE *destP, const int *child0States, const REALTYPE *child0TransMat, const REALTYPE *child1Partials, const REALTYPE *child1TransMat, const REALTYPE *scaleFactors)"
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.RI "virtual void \fBcalcPartialsPartialsFixedScaling\fP (REALTYPE *destP, const REALTYPE *child0Partials, const REALTYPE *child0TransMat, const REALTYPE *child1Partials, const REALTYPE *child1TransMat, const REALTYPE *scaleFactors)"
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.RI "virtual void \fBcalcPartialsPartialsAutoScaling\fP (REALTYPE *destP, const REALTYPE *child0Partials, const REALTYPE *child0TransMat, const REALTYPE *child1Partials, const REALTYPE *child1TransMat, int *activateScaling)"
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.RI "int \fBintegrateOutStatesAndScale\fP (const REALTYPE *integrationTmp, const int stateFrequenciesIndex, const int scalingFactorsIndex, double *outSumLogLikelihood)"
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.RI "virtual void \fBrescalePartials\fP (REALTYPE *destP, REALTYPE *scaleFactors, REALTYPE *cumulativeScaleFactors, const int fillWithOnes)"
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.in -1c
.SS "Additional Inherited Members"


.SH "Author"
.PP 
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