Gromacs
2022.2
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#include <gromacs/nbnxm/pairsearch.h>
Main pair-search struct, contains the grid(s), not the pair-list(s)
Public Member Functions | |
void | putOnGrid (const matrix box, int ddZone, const rvec lowerCorner, const rvec upperCorner, const gmx::UpdateGroupsCog *updateGroupsCog, gmx::Range< int > atomRange, real atomDensity, gmx::ArrayRef< const int64_t > atomInfo, gmx::ArrayRef< const gmx::RVec > x, int numAtomsMoved, const int *move, nbnxn_atomdata_t *nbat) |
Puts the atoms in ddZone on the grid and copies the coordinates to nbat . | |
PairSearch (PbcType pbcType, bool doTestParticleInsertion, const ivec *numDDCells, const gmx_domdec_zones_t *zones, PairlistType pairlistType, bool haveFep, int maxNumThreads, gmx::PinningPolicy pinningPolicy) | |
Constructor. More... | |
void | setLocalAtomOrder () |
Sets the order of the local atoms to the order grid atom ordering. | |
const Nbnxm::GridSet & | gridSet () const |
Returns the set of search grids. | |
gmx::ArrayRef< const PairsearchWork > | work () const |
Returns the list of thread-local work objects. | |
gmx::ArrayRef< PairsearchWork > | work () |
Returns the list of thread-local work objects. | |
Public Attributes | |
SearchCycleCounting | cycleCounting_ |
Cycle counting for measuring components of the search. | |
PairSearch::PairSearch | ( | PbcType | pbcType, |
bool | doTestParticleInsertion, | ||
const ivec * | numDDCells, | ||
const gmx_domdec_zones_t * | zones, | ||
PairlistType | pairlistType, | ||
bool | haveFep, | ||
int | maxNumThreads, | ||
gmx::PinningPolicy | pinningPolicy | ||
) |
Constructor.
[in] | pbcType | The periodic boundary conditions |
[in] | doTestParticleInsertion | Whether test-particle insertion is active |
[in] | numDDCells | The number of domain decomposition cells per dimension, without DD nullptr should be passed |
[in] | zones | The domain decomposition zone setup, without DD nullptr should be passed |
[in] | pairlistType | The type of tte pair list |
[in] | haveFep | Tells whether non-bonded interactions are perturbed |
[in] | maxNumThreads | The maximum number of threads used in the search |
[in] | pinningPolicy | Sets the pinning policy for all buffers used on the GPU |