beagleoperation(3) [debian man page]
BeagleOperation(3) HMSBEAGLE BeagleOperation(3) NAME
BeagleOperation - SYNOPSIS
Public Attributes int destinationPartials int destinationScaleWrite int destinationScaleRead int child1Partials int child1TransitionMatrix int child2Partials int child2TransitionMatrix Author Generated automatically by Doxygen for HMSBEAGLE from the source code. Version 1.0.0 Fri May 25 2012 BeagleOperation(3)
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beagle::BeagleImpl(3) HMSBEAGLE beagle::BeagleImpl(3) NAME
beagle::BeagleImpl - SYNOPSIS
Inherited by beagle::cpu::BeagleCPUImpl, and beagle::gpu::BeagleGPUImpl. Public Member Functions virtual int createInstance (int tipCount, int partialsBufferCount, int compactBufferCount, int stateCount, int patternCount, int eigenBufferCount, int matrixBufferCount, int categoryCount, int scaleBufferCount, int resourceNumber, long preferenceFlags, long requirementFlags)=0 virtual int getInstanceDetails (BeagleInstanceDetails *returnInfo)=0 virtual int setTipStates (int tipIndex, const int *inStates)=0 virtual int setTipPartials (int tipIndex, const double *inPartials)=0 virtual int setPartials (int bufferIndex, const double *inPartials)=0 virtual int getPartials (int bufferIndex, int scaleIndex, double *outPartials)=0 virtual int setEigenDecomposition (int eigenIndex, const double *inEigenVectors, const double *inInverseEigenVectors, const double *inEigenValues)=0 virtual int setStateFrequencies (int stateFrequenciesIndex, const double *inStateFrequencies)=0 virtual int setCategoryWeights (int categoryWeightsIndex, const double *inCategoryWeights)=0 virtual int setPatternWeights (const double *inPatternWeights)=0 virtual int setCategoryRates (const double *inCategoryRates)=0 virtual int setTransitionMatrix (int matrixIndex, const double *inMatrix, double paddedValue)=0 virtual int setTransitionMatrices (const int *matrixIndices, const double *inMatrices, const double *paddedValues, int count)=0 virtual int getTransitionMatrix (int matrixIndex, double *outMatrix)=0 virtual int updateTransitionMatrices (int eigenIndex, const int *probabilityIndices, const int *firstDerivativeIndices, const int *secondDerivativeIndices, const double *edgeLengths, int count)=0 virtual int updatePartials (const int *operations, int operationCount, int cumulativeScalingIndex)=0 virtual int waitForPartials (const int *destinationPartials, int destinationPartialsCount)=0 virtual int accumulateScaleFactors (const int *scalingIndices, int count, int cumulativeScalingIndex)=0 virtual int removeScaleFactors (const int *scalingIndices, int count, int cumulativeScalingIndex)=0 virtual int resetScaleFactors (int cumulativeScalingIndex)=0 virtual int copyScaleFactors (int destScalingIndex, int srcScalingIndex)=0 virtual int calculateRootLogLikelihoods (const int *bufferIndices, const int *categoryWeightsIndices, const int *stateFrequenciesIndices, const int *scalingFactorsIndices, int count, double *outSumLogLikelihood)=0 virtual int calculateEdgeLogLikelihoods (const int *parentBufferIndices, const int *childBufferIndices, const int *probabilityIndices, const int *firstDerivativeIndices, const int *secondDerivativeIndices, const int *categoryWeightsIndices, const int *stateFrequenciesIndices, const int *scalingFactorsIndices, int count, double *outSumLogLikelihood, double *outSumFirstDerivative, double *outSumSecondDerivative)=0 virtual int getSiteLogLikelihoods (double *outLogLikelihoods)=0 virtual int getSiteDerivatives (double *outFirstDerivatives, double *outSecondDerivatives)=0 Public Attributes int resourceNumber Author Generated automatically by Doxygen for HMSBEAGLE from the source code. Version 1.0.0 Fri May 25 2012 beagle::BeagleImpl(3)