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::cpu::BeagleCPU4StateImpl(3) HMSBEAGLE beagle::cpu::BeagleCPU4StateImpl(3)NAME
beagle::cpu::BeagleCPU4StateImpl -
SYNOPSIS
Inherits beagle::cpu::BeagleCPUImpl< BEAGLE_CPU_GENERIC >.
Public Member Functions
virtual const char * getName ()
virtual void calcStatesStates (REALTYPE *destP, const int *states1, const REALTYPE *matrices1, const int *states2, const REALTYPE
*matrices2)
virtual void calcStatesPartials (REALTYPE *destP, const int *states1, const REALTYPE *matrices1, const REALTYPE *partials2, const REALTYPE
*matrices2)
virtual void calcPartialsPartials (REALTYPE *destP, const REALTYPE *partials1, const REALTYPE *matrices1, const REALTYPE *partials2, const
REALTYPE *matrices2)
virtual int calcRootLogLikelihoods (const int bufferIndex, const int categoryWeightsIndex, const int stateFrequenciesIndex, const int
scalingFactorsIndex, double *outSumLogLikelihood)
virtual int calcRootLogLikelihoodsMulti (const int *bufferIndices, const int *categoryWeightsIndices, const int *stateFrequenciesIndices,
const int *scaleBufferIndices, int count, double *outSumLogLikelihood)
virtual int calcEdgeLogLikelihoods (const int parentBufferIndex, const int childBufferIndex, const int probabilityIndex, const int
categoryWeightsIndex, const int stateFrequenciesIndex, const int scalingFactorsIndex, double *outSumLogLikelihood)
virtual void calcStatesStatesFixedScaling (REALTYPE *destP, const int *child0States, const REALTYPE *child0TransMat, const int
*child1States, const REALTYPE *child1TransMat, const REALTYPE *scaleFactors)
virtual void calcStatesPartialsFixedScaling (REALTYPE *destP, const int *child0States, const REALTYPE *child0TransMat, const REALTYPE
*child1Partials, const REALTYPE *child1TransMat, const REALTYPE *scaleFactors)
virtual void calcPartialsPartialsFixedScaling (REALTYPE *destP, const REALTYPE *child0Partials, const REALTYPE *child0TransMat, const
REALTYPE *child1Partials, const REALTYPE *child1TransMat, const REALTYPE *scaleFactors)
virtual void calcPartialsPartialsAutoScaling (REALTYPE *destP, const REALTYPE *child0Partials, const REALTYPE *child0TransMat, const
REALTYPE *child1Partials, const REALTYPE *child1TransMat, int *activateScaling)
int integrateOutStatesAndScale (const REALTYPE *integrationTmp, const int stateFrequenciesIndex, const int scalingFactorsIndex, double
*outSumLogLikelihood)
virtual void rescalePartials (REALTYPE *destP, REALTYPE *scaleFactors, REALTYPE *cumulativeScaleFactors, const int fillWithOnes)
Additional Inherited Members
Author
Generated automatically by Doxygen for HMSBEAGLE from the source code.
Version 1.0.0 Fri May 25 2012 beagle::cpu::BeagleCPU4StateImpl(3)
I have a huge matrix file containing some 1.5 million rows and 6000 columns. The matrix looks something like this:
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file1
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file2
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