Unsuccessful install due to unrecognized disk issue Post: 302962640

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beagle_beagleimpl

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)