CudaComputeNonbondedKernel Class Reference

#include <CudaComputeNonbondedKernel.h>

Public Member Functions
	CudaComputeNonbondedKernel (int deviceID, CudaNonbondedTables &cudaNonbondedTables, bool doStreaming)
	~CudaComputeNonbondedKernel ()
void	updateVdwTypesExcl (const int atomStorageSize, const int *h_vdwTypes, const int2 *h_exclIndexMaxDiff, const int *h_atomIndex, cudaStream_t stream)
void	updateVdwTypesExclOnGPU (CudaTileListKernel &tlKernel, const int numPatches, const int atomStorageSize, const bool alchOn, CudaLocalRecord *localRecords, const int *d_vdwTypes, const int *d_id, const int *d_sortOrder, const int *d_partition, cudaStream_t stream)
void	nonbondedForce (CudaTileListKernel &tlKernel, const int atomStorageSize, const bool atomsChanged, const bool doMinimize, const bool doPairlist, const bool doEnergy, const bool doVirial, const bool doSlow, const bool doAlch, const bool doAlchVdwForceSwitching, const bool doFEP, const bool doTI, const bool doTable, const float3 lata, const float3 latb, const float3 latc, const float4 *h_xyzq, const float cutoff2, const CudaNBConstants nbConstants, float4 *d_forces, float4 *d_forcesSlow, float4 *h_forces, float4 *h_forcesSlow, AlchData *fepFlags, bool lambdaWindowUpdated, char *part, bool CUDASOAintegratorOn, bool useDeviceMigration, cudaStream_t stream)
void	reduceVirialEnergy (CudaTileListKernel &tlKernel, const int atomStorageSize, const bool doEnergy, const bool doVirial, const bool doSlow, const bool doGBIS, float4 *d_forces, float4 *d_forcesSlow, VirialEnergy *d_virialEnergy, cudaStream_t stream)
void	getVirialEnergy (VirialEnergy *h_virialEnergy, cudaStream_t stream)
void	bindExclusions (int numExclusions, unsigned int *exclusion_bits)
int *	getPatchReadyQueue ()
void	reallocate_forceSOA (int atomStorageSize)
void	setExclusionsByAtom (int2 *h_data, const int num_atoms)

Static Public Member Functions
static __device__ __host__ __forceinline__ int	computeNumTiles (const int numAtoms, const int tilesize=WARPSIZE)
static __device__ __host__ __forceinline__ int	computeAtomPad (const int numAtoms, const int tilesize=WARPSIZE)

Detailed Description

Definition at line 52 of file CudaComputeNonbondedKernel.h.

Constructor & Destructor Documentation

CudaComputeNonbondedKernel()

CudaComputeNonbondedKernel::CudaComputeNonbondedKernel	(	int	deviceID,
		CudaNonbondedTables &	cudaNonbondedTables,
		bool	doStreaming
	)

~CudaComputeNonbondedKernel()

CudaComputeNonbondedKernel::~CudaComputeNonbondedKernel

(

)

Member Function Documentation

bindExclusions()

void CudaComputeNonbondedKernel::bindExclusions	(	int	numExclusions,
		unsigned int *	exclusion_bits
	)

computeAtomPad()

static __device__ __host__ __forceinline__ int CudaComputeNonbondedKernel::computeAtomPad ( const int  numAtoms, const int  tilesize = WARPSIZE  )

inlinestatic

Definition at line 95 of file CudaComputeNonbondedKernel.h.

References computeNumTiles().

                                                                    { 
    return computeNumTiles(numAtoms, tilesize)*tilesize; 
  }

computeNumTiles()

static __device__ __host__ __forceinline__ int CudaComputeNonbondedKernel::computeNumTiles ( const int  numAtoms, const int  tilesize = WARPSIZE  )

inlinestatic

Definition at line 90 of file CudaComputeNonbondedKernel.h.

Referenced by computeAtomPad().

                                                                     { 
    return (numAtoms+tilesize-1)/tilesize; 
  }

getPatchReadyQueue()

int* CudaComputeNonbondedKernel::getPatchReadyQueue

(

)

Referenced by CudaComputeNonbonded::launchWork().

getVirialEnergy()

void CudaComputeNonbondedKernel::getVirialEnergy	(	VirialEnergy *	h_virialEnergy,
		cudaStream_t	stream
	)

nonbondedForce()

void CudaComputeNonbondedKernel::nonbondedForce	(	CudaTileListKernel &	tlKernel,
		const int	atomStorageSize,
		const bool	atomsChanged,
		const bool	doMinimize,
		const bool	doPairlist,
		const bool	doEnergy,
		const bool	doVirial,
		const bool	doSlow,
		const bool	doAlch,
		const bool	doAlchVdwForceSwitching,
		const bool	doFEP,
		const bool	doTI,
		const bool	doTable,
		const float3	lata,
		const float3	latb,
		const float3	latc,
		const float4 *	h_xyzq,
		const float	cutoff2,
		const CudaNBConstants	nbConstants,
		float4 *	d_forces,
		float4 *	d_forcesSlow,
		float4 *	h_forces,
		float4 *	h_forcesSlow,
		AlchData *	fepFlags,
		bool	lambdaWindowUpdated,
		char *	part,
		bool	CUDASOAintegratorOn,
		bool	useDeviceMigration,
		cudaStream_t	stream
	)

reallocate_forceSOA()

void CudaComputeNonbondedKernel::reallocate_forceSOA

(

int

atomStorageSize

)

reduceVirialEnergy()

void CudaComputeNonbondedKernel::reduceVirialEnergy	(	CudaTileListKernel &	tlKernel,
		const int	atomStorageSize,
		const bool	doEnergy,
		const bool	doVirial,
		const bool	doSlow,
		const bool	doGBIS,
		float4 *	d_forces,
		float4 *	d_forcesSlow,
		VirialEnergy *	d_virialEnergy,
		cudaStream_t	stream
	)

Referenced by CudaComputeNonbonded::launchWork().

setExclusionsByAtom()

void CudaComputeNonbondedKernel::setExclusionsByAtom	(	int2 *	h_data,
		const int	num_atoms
	)

updateVdwTypesExcl()

void CudaComputeNonbondedKernel::updateVdwTypesExcl	(	const int	atomStorageSize,
		const int *	h_vdwTypes,
		const int2 *	h_exclIndexMaxDiff,
		const int *	h_atomIndex,
		cudaStream_t	stream
	)

updateVdwTypesExclOnGPU()

void CudaComputeNonbondedKernel::updateVdwTypesExclOnGPU	(	CudaTileListKernel &	tlKernel,
		const int	numPatches,
		const int	atomStorageSize,
		const bool	alchOn,
		CudaLocalRecord *	localRecords,
		const int *	d_vdwTypes,
		const int *	d_id,
		const int *	d_sortOrder,
		const int *	d_partition,
		cudaStream_t	stream
	)

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The documentation for this class was generated from the following file:

• CudaComputeNonbondedKernel.h