Classes
struct	HaloExchangeTestParameters
	Parameters over which halo exchange is tested. More...

class	HaloExchangeTestData
	Data used in test body for halo exchange. More...

class	HaloExchangeTest
	Test fixture for halo exchange. More...

Functions
float	encodedValue (const int sendRank, const int atomNumber, const int spatial3dIndex)
	Get encoded numerical value for sending rank, atom number and spatial 3D index. More...

void	initHaloData (const int rank, RVec *x, const int numHomeAtoms, const int numAtomsTotal)
	Initialize halo array. More...

MessageStringCollector	gpuHalo (gmx_domdec_t dd, matrix box, HostVector< RVec > h_x, int numAtomsTotal)
	Perform GPU halo exchange, including required setup and data transfers. More...

void	define1dRankTopology (const int rank, const int size, gmx_domdec_t *dd)
	Define 1D rank topology with 4 MPI tasks. More...

void	define2dRankTopology (const int rank, const int, gmx_domdec_t *dd)
	Define 2D rank topology with 4 MPI tasks. More...

void	define1dHaloWith1Pulse (const int rank, const int, gmx_domdec_t dd, std::vector< gmx_domdec_ind_t > indvec)
	Define a 1D halo with 1 pulses. More...

void	define1dHaloWith2Pulses (const int rank, const int, gmx_domdec_t dd, std::vector< gmx_domdec_ind_t > indvec)
	Define a 1D halo with 2 pulses. More...

void	define2dHaloWith1PulseInEachDim (const int rank, const int, gmx_domdec_t dd, std::vector< gmx_domdec_ind_t > indvec)
	Define a 2D halo with 1 pulse in each dimension. More...

void	define2dHaloWith2PulsesInDim1 (const int rank, const int, gmx_domdec_t dd, std::vector< gmx_domdec_ind_t > indvec)
	Define a 2D halo with 2 pulses in the first dimension. More...

void	checkResults1dHaloWith1Pulse (const RVec x, const gmx_domdec_t dd, const int numHomeAtoms)
	Check results for above-defined 1D halo with 1 pulse. More...

void	checkResults1dHaloWith2Pulses (const RVec x, const gmx_domdec_t dd, const int numHomeAtoms)
	Check results for above-defined 1D halo with 2 pulses. More...

void	checkResults2dHaloWith1PulseInEachDim (const RVec x, const gmx_domdec_t dd, const int numHomeAtoms)
	Check results for above-defined 2D halo with 1 pulse in each dimension. More...

void	checkResults2dHaloWith2PulsesInDim1 (const RVec x, const gmx_domdec_t dd, const int numHomeAtoms)
	Check results for above-defined 2D halo with 2 pulses in the first dimension. More...

Variables
static const std::vector < HaloExchangeTestParameters >	c_testSetups

Function Documentation

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::checkResults1dHaloWith1Pulse	(	const RVec *	x,
		const gmx_domdec_t *	dd,
		const int	numHomeAtoms
	)

Check results for above-defined 1D halo with 1 pulse.

Parameters

[in]	x	Atom coordinate data array
[in]	dd	Domain decomposition object
[in]	numHomeAtoms	Number of home atoms

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::checkResults1dHaloWith2Pulses	(	const RVec *	x,
		const gmx_domdec_t *	dd,
		const int	numHomeAtoms
	)

Check results for above-defined 1D halo with 2 pulses.

Parameters

[in]	x	Atom coordinate data array
[in]	dd	Domain decomposition object
[in]	numHomeAtoms	Number of home atoms

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::checkResults2dHaloWith1PulseInEachDim	(	const RVec *	x,
		const gmx_domdec_t *	dd,
		const int	numHomeAtoms
	)

Check results for above-defined 2D halo with 1 pulse in each dimension.

Parameters

[in]	x	Atom coordinate data array
[in]	dd	Domain decomposition object
[in]	numHomeAtoms	Number of home atoms

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::checkResults2dHaloWith2PulsesInDim1	(	const RVec *	x,
		const gmx_domdec_t *	dd,
		const int	numHomeAtoms
	)

Check results for above-defined 2D halo with 2 pulses in the first dimension.

Parameters

[in]	x	Atom coordinate data array
[in]	dd	Domain decomposition object
[in]	numHomeAtoms	Number of home atoms

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::define1dHaloWith1Pulse	(	const int	rank,
		const int	,
		gmx_domdec_t *	dd,
		std::vector< gmx_domdec_ind_t > *	indvec
	)

Define a 1D halo with 1 pulses.

Parameters

[in]	rank	Rank within MPI communicator
[out]	dd	Domain decomposition object
[out]	indvec	Vector of index vectors

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::define1dHaloWith2Pulses	(	const int	rank,
		const int	,
		gmx_domdec_t *	dd,
		std::vector< gmx_domdec_ind_t > *	indvec
	)

Define a 1D halo with 2 pulses.

Parameters

[in]	rank	Rank within MPI communicator
[out]	dd	Domain decomposition object
[out]	indvec	Vector of index vectors

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::define1dRankTopology	(	const int	rank,
		const int	size,
		gmx_domdec_t *	dd
	)

Define 1D rank topology with 4 MPI tasks.

Parameters

[in]	rank	Rank within MPI communicator
[in]	size	Size of MPI communicator
[out]	dd	Domain decomposition object

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::define2dHaloWith1PulseInEachDim	(	const int	rank,
		const int	,
		gmx_domdec_t *	dd,
		std::vector< gmx_domdec_ind_t > *	indvec
	)

Define a 2D halo with 1 pulse in each dimension.

Parameters

[in]	rank	Rank within MPI communicator
[out]	dd	Domain decomposition object
[out]	indvec	Vector of index vectors

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::define2dHaloWith2PulsesInDim1	(	const int	rank,
		const int	,
		gmx_domdec_t *	dd,
		std::vector< gmx_domdec_ind_t > *	indvec
	)

Define a 2D halo with 2 pulses in the first dimension.

Parameters

[in]	rank	Rank within MPI communicator
[out]	dd	Domain decomposition object
[out]	indvec	Vector of index vectors

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::define2dRankTopology	(	const int	rank,
		const int	,
		gmx_domdec_t *	dd
	)

Define 2D rank topology with 4 MPI tasks.

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Parameters

[in]	rank	Rank within MPI communicator
[out]	dd	Domain decomposition object

float gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::encodedValue	(	const int	sendRank,
		const int	atomNumber,
		const int	spatial3dIndex
	)

Get encoded numerical value for sending rank, atom number and spatial 3D index.

Parameters

[in]	sendRank	MPI rank of sender
[in]	atomNumber	Atom number
[in]	spatial3dIndex	Spatial 3D Index

Returns: Encoded value

MessageStringCollector gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::gpuHalo	(	gmx_domdec_t *	dd,
		matrix	box,
		HostVector< RVec > *	h_x,
		int	numAtomsTotal
	)

Perform GPU halo exchange, including required setup and data transfers.

Parameters

[in]	dd	Domain decomposition object
[in]	box	Box matrix
[in]	h_x	Atom coordinate data array on host
[in]	numAtomsTotal	Total number of atoms, including halo

Returns: A collection of messages explaining why the halo exchange needs to be skipped, which is empty when the halo exchange was run.

void gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::initHaloData	(	const int	rank,
		RVec *	x,
		const int	numHomeAtoms,
		const int	numAtomsTotal
	)

Initialize halo array.

Parameters

[in]	rank	Rank within MPI communicator
[out]	x	Atom coordinate data array
[in]	numHomeAtoms	Number of home atoms
[in]	numAtomsTotal	Total number of atoms, including halo

Variable Documentation

const std::vector<HaloExchangeTestParameters> gmx::test::anonymous_namespace{haloexchange_mpi.cpp}::c_testSetups

static

Initial value:

= {
    { "1D halo with 1 pulse", 10, 2, { 0 }, define1dRankTopology, define1dHaloWith1Pulse, checkResults1dHaloWith1Pulse },
    { "1D halo with 2 pulses", 10, 5, { 0 }, define1dRankTopology, define1dHaloWith2Pulses, checkResults1dHaloWith2Pulses },
    { "2D halo with 1 pulse in each dimension",
      10,
      4,
      { 0, 1 },
      define2dRankTopology,
      define2dHaloWith1PulseInEachDim,
      checkResults2dHaloWith1PulseInEachDim },
    { "2D halo with 2 pulses in first dimension",
      10,
      7,
      { 0, 1 },
      define2dRankTopology,
      define2dHaloWith2PulsesInDim1,
      checkResults2dHaloWith2PulsesInDim1 },
}

Classes

Functions

Variables

Function Documentation

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Variable Documentation