- p -
- P
: Rebalancer
- p
: AngleElem
, BondElem
, GromacsPairElem
, ComputePatch
, ComputePatchPair
, PatchElem
, TholeElem
, Patch
, CrosstermElem
, TuplePatchElem
, Rebalancer::pcpair
, ImproperElem
, AnisoElem
, DihedralElem
, ComputeNonbondedCUDA::patch_record
, ExclElem
, ComputeGlobalDataMsg
, ComputeNonbondedMIC::patch_record
, nonbonded
- p_0_sortValues
: ComputeNonbondedWorkArrays
- p_avg
: Patch
- p_sum
: GridforceFullBaseGrid
- pad
: AlignVector
- pad_n
: GridforceFullBaseGrid
- pad_p
: GridforceFullBaseGrid
- padding
: ComputeMsmMgr
, ProxyResultVarsizeMsg
- Padding
: AmberParm7Reader::FortranFormatSpecifier
- pairC12
: gromacsPair
, Molecule
, GromacsPairValue
- pairC6
: Molecule
, GromacsPairValue
, gromacsPair
- pairInteractionGroup1
: SimParameters
- pairInteractionGroup2
: SimParameters
- pairInteractionOn
: ComputeNonbondedUtil
, SimParameters
- pairInteractionSelf
: ComputeNonbondedUtil
, SimParameters
- pairlist
: ComputeNonbondedWorkArrays
- pairlist2
: ComputeNonbondedWorkArrays
- pairlistDist
: SimParameters
- pairlistGrow
: SimParameters
- pairlisti
: ComputeNonbondedWorkArrays
- pairlistm
: ComputeNonbondedWorkArrays
- pairlistmA1
: ComputeNonbondedWorkArrays
- pairlistmA2
: ComputeNonbondedWorkArrays
- pairlistmA3
: ComputeNonbondedWorkArrays
- pairlistmA4
: ComputeNonbondedWorkArrays
- pairlistMinProcs
: SimParameters
- pairlistnA0
: ComputeNonbondedWorkArrays
- pairlistnA1
: ComputeNonbondedWorkArrays
- pairlistnA2
: ComputeNonbondedWorkArrays
- pairlistnA3
: ComputeNonbondedWorkArrays
- pairlistnA4
: ComputeNonbondedWorkArrays
- pairlistnAlch
: ComputeNonbondedWorkArrays
- pairlists
: ComputeNonbondedPair
, ComputeNonbondedSelf
, nonbonded
- pairlistsAge
: Sequencer
- pairlistsAreValid
: Sequencer
- pairlistShrink
: SimParameters
- pairlistsPerCycle
: SimParameters
- pairlistsValid
: ComputeNonbondedCUDA
, ComputeNonbondedMIC
, ComputeNonbondedPair
, ComputeNonbondedSelf
- pairlistTolerance
: ComputeNonbondedCUDA
, ComputeNonbondedMIC
, ComputeNonbondedPair
, ComputeNonbondedSelf
, Flags
- pairlistTrigger
: SimParameters
- pairlistWarnings
: Controller
- pairlistx
: ComputeNonbondedWorkArrays
- pairlistxA1
: ComputeNonbondedWorkArrays
- pairlistxA2
: ComputeNonbondedWorkArrays
- pairlistxA3
: ComputeNonbondedWorkArrays
- pairlistxA4
: ComputeNonbondedWorkArrays
- pairOn
: ComputePmeUtil
- param
: ScriptParamMsg
- parameters
: nonbonded
, Node
- params
: ComputeNonbondedPair
, ComputeNonbondedSelf
- paraTypeCharmmOn
: SimParameters
- paraTypeXplorOn
: SimParameters
- parent
: DataExchanger
, GridforceFullSubGrid
, ParseOptions::DataElement
- parent_ptr
: ParseOptions::DataElement
- part
: ComputeNonbondedMIC::compute_record
- particles
: ComputeDPMEDataMsg
- partition
: ComputeMap::ComputeData
, CompAtom
- partner
: atom_constants
, AtomCstInfo
- patch
: ComputeHomePatch
, ComputeLCPO
, ComputePatch
, ComputePatchPair
, CudaComputeNonbonded::PatchRecord
, HomePatchElem
, ProxyGBISP1ResultMsg
, ProxyGBISP2DataMsg
, ProxyGBISP2ResultMsg
, ProxyGBISP3DataMsg
, RegisterProxyMsg
, UnregisterProxyMsg
, ProxyDataMsg
, ProxyResultMsg
, ProxyResultVarsizeMsg
, ProxyNodeAwareSpanningTreeMsg
, ProxyCombinedResultRawMsg
, ProxyCombinedResultMsg
, ProxySpanningTreeMsg
, ProxyUsageKey
, Sequencer
- patch1
: computeInfo
- patch2
: computeInfo
- patchArray
: LdbCoordinator
- patchCnt
: MovePatchAtomsMsg
- patchcount
: ComputeGlobalDataMsg
- patchDimension
: SimParameters
- patches
: Rebalancer
- patchHandles
: LdbCoordinator
- patchID
: PatchElem
, TuplePatchElem
, ComputeLCPO
, msm::PatchData
, ComputeNonbondedCUDA::patch_record
, ComputeNonbondedMIC::patch_record
, GBISParamStruct
, ComputePatch
, ComputePatchPair
, CudaComputeNonbonded::PatchRecord
, msm::PatchSend
, Patch
, ProxyElem
, ProxyListInfo
- patchIDs
: PatchProxyListMsg
- patchInd
: CudaComputeNonbonded::ComputeRecord
, TileList
, CudaComputeRecord
- patchList
: ComputeHomePatches
, msm::Map
- patchMap
: ComputeHomePatches
, ComputeHomeTuples< T, S, P >
, ComputeNonbondedCUDA
, ComputeNonbondedMIC
, LdbCoordinator
, Node
- patchMapData
: PatchMapMsg
- patchMgr
: BOCgroup
- patchNAtoms
: LdbCoordinator
- patchNumList
: TileList
- patchPairsReordered
: ComputeNonbondedCUDA
- patchPtr
: ComputeMsmMgr
- patchReadyQueueCount
: TileListStat
- patchRecords
: ComputeNonbondedCUDA
, ComputeNonbondedMIC
- patchSet
: processorInfo
- pcIndxs
: QMCoordMsg
- pcScheme
: QMGrpCalcMsg
- pcSelMode
: QMCoordMsg
- pd
: msm::PatchData
- pdb
: Node
- PDBNames
: PDBData
- PE
: StreamMessage
- pe
: PmeAtomMsg
, PmeForceMsg
, PmeLaunchMsg
, CudaComputeNonbonded::PatchRecord
, CheckpointAtomsReqMsg
, CheckpointAtomsMsg
- pe_start
: NodePmeInfo
- peCompactOrdering
: WorkDistrib
- peCompactOrderingIndex
: WorkDistrib
- peDiffuseOrdering
: WorkDistrib
- peDiffuseOrderingIndex
: WorkDistrib
- peIDs
: proxyTreeNode
- peIter
: QMGrpCalcMsg
- peOrderingInit
: WorkDistrib
- permutation
: PmeKSpaceCompute
, PmeTranspose
- pes
: Rebalancer
- pExt
: nonbonded
, ComputePatch
, ComputePatchPair
, Patch
- pgc
: MsmGridCutoffKernel< Vtype, Mtype >
- pgvc
: MsmGridCutoffKernel< Vtype, Mtype >
- Phase
: parm
, AmberParm7Reader::Ambertoppar
- PhiStencil
: ComputeMsmMgr
- pi_ewaldcof
: ComputeNonbondedUtil
- pid
: ComputeMap::PatchRec
, ComputeNonbondedCUDA::compute_record
, ComputeNonbondedMIC::compute_record
, CudaComputeNonbonded::ComputeRecord
, HomePatchElem
, LocalID
, MovePatchesMsg
, CheckpointAtomsReqMsg
, CheckpointAtomsMsg
, ExchangeAtomsReqMsg
, ExchangeAtomsMsg
, MovePatch
- pidList
: AtomsCntPerPatchMsg
, MovePatchAtomsMsg
- pids
: ComputeMap::ComputeData
- Pk
: parm
, AmberParm7Reader::Ambertoppar
- plcutoff
: nonbonded
- plcutoff2
: ComputeNonbondedCUDA
, ComputeNonbondedMIC
- plExtLen
: ProxyDataMsg
- plLen
: ProxyDataMsg
- pmap
: patch_sortop_curve_c
, patch_sortop_curve_a
, patch_sortop_curve_b
- pmax
: GridforceFullSubGrid
- PMEBarrier
: SimParameters
- pmeComputes
: ComputePmeMgr
- PMEEwaldCoefficient
: QMGrpCalcMsg
, SimParameters
- pmeGrid
: PmePencilY
, PmeTranspose
, CudaPmeXInitMsg
, CudaPmeXYZInitMsg
, CudaPmeXYInitMsg
, PmePencilXYZ
, PmePencilXY
, PmePencilX
, PmePencilZ
, PmeKSpaceCompute
, PmeRealSpaceCompute
- PMEGridSizeX
: SimParameters
- PMEGridSizeY
: SimParameters
- PMEGridSizeZ
: SimParameters
- PMEGridSpacing
: SimParameters
- PMEInterpOrder
: SimParameters
- pmeKSpaceCompute
: PmePencilXYZ
, PmePencilZ
- pmemgr_lock
: ComputePmeMgr
- PMEMinPoints
: SimParameters
- PMEMinSlices
: SimParameters
- pmeNodeProxy
: PmePencilInitMsgData
- PMEOffload
: SimParameters
- PMEOn
: QMForceMsg
, QMGrpCalcMsg
, SimParameters
- PMEPencils
: SimParameters
- PMEPencilsX
: SimParameters
- PMEPencilsXLayout
: SimParameters
- PMEPencilsY
: SimParameters
- PMEPencilsYLayout
: SimParameters
- PMEPencilsZ
: SimParameters
- pmePencilX
: CudaPmeXInitMsg
- pmePencilXY
: CudaPmeXYInitMsg
- pmePencilY
: CudaPmeXInitMsg
- pmePencilZ
: CudaPmeXYInitMsg
, CudaPmeXInitMsg
- PMEProcessors
: SimParameters
- pmeProxy
: PmePencilInitMsgData
- PMESendOrder
: SimParameters
- PMETolerance
: SimParameters
- pmeTranspose
: PmePencilXY
, PmePencilY
, PmePencilZ
, PmePencilX
- pmin
: GridforceFullSubGrid
- Pn
: parm
, AmberParm7Reader::Ambertoppar
- pointerToGaussBeg
: Molecule
- pointerToGaussEnd
: Molecule
- pointerToGoBeg
: Molecule
- pointerToGoEnd
: Molecule
- pointerToLJBeg
: Molecule
- pointerToLJEnd
: Molecule
- Polarizability
: AmberParm7Reader::Ambertoppar
- PolyDegree
: ComputeMsmMgr
- popn
: parm
- pos
: ComputeLCPO
, PmeTranspose
, dummyData
- posBoxP
: patchDataStrc
- posExt
: ComputeLCPO
- position
: msm::AtomCoord
, ComputeExtAtom
, QMAtomData
, ComputeFmmSerialAtom
, ComputeMsmSerialAtom
, ComputeQMAtom
, ComputeQMPntChrg
, ComputeGBISAtom
, CompAtom
- positionBox
: CudaComputeNonbonded::PatchRecord
, ComputeNonbondedCUDA::patch_record
, PatchElem
, ComputeNonbondedMIC::patch_record
, ComputePatch
, ComputePatchPair
, Patch
, TuplePatchElem
, ComputeLCPO
- positionComputeList
: Patch
- positionExtList
: ProxyDataMsg
- positionList
: ProxyDataMsg
- positionRescaleFactor
: ControllerBroadcasts
, Controller
- positionRescaleFactor2
: ControllerBroadcasts
- posNew
: HomePatch
- poten_fp
: GridforceFullBaseGrid
- ppbonded
: Controller
- ppint
: Controller
- ppnonbonded
: Controller
- pr
: cr_sortop_reverse_priority
- Precision
: AmberParm7Reader::FortranFormatSpecifier
- precisions
: CollectionMgr::CollectVectorInstance
- prepProc
: QMGrpCalcMsg
- prepProcOn
: QMGrpCalcMsg
- pressure
: Controller
- pressure_amd
: Controller
- pressure_avg
: Controller
- pressure_nbond
: Controller
- pressure_normal
: Controller
- pressure_slow
: Controller
- pressure_tavg
: Controller
- pressureProfileAtomTypes
: GromacsPairElem
, CrosstermElem
, DihedralElem
, ExclElem
, SimParameters
, ImproperElem
, TholeElem
, ComputeNonbondedUtil
, BondElem
, AnisoElem
, AngleElem
- pressureProfileAverage
: Controller
- pressureProfileCount
: Controller
- pressureProfileData
: ComputeHomeTuples< T, S, P >
, ComputeNonbondedSelf
, ComputeNonbondedPair
- pressureProfileEwaldOn
: SimParameters
- pressureProfileEwaldX
: SimParameters
- pressureProfileEwaldY
: SimParameters
- pressureProfileEwaldZ
: SimParameters
- pressureProfileFreq
: SimParameters
- pressureProfileMin
: ComputeNonbondedUtil
, TholeElem
, AngleElem
, BondElem
, ExclElem
, ImproperElem
, CrosstermElem
, DihedralElem
, GromacsPairElem
, AnisoElem
- pressureProfileOn
: ComputeNonbondedUtil
, SimParameters
- pressureProfileReduction
: nonbonded
, ComputeNonbondedSelf
, Sequencer
, ComputeNonbondedPair
, ComputeHomeTuples< T, S, P >
- pressureProfileSlabs
: DihedralElem
, AngleElem
, GromacsPairElem
, CrosstermElem
, BondElem
, AnisoElem
, ImproperElem
, ComputeHomeTuples< T, S, P >
, Controller
, TholeElem
, SimParameters
, ComputeNonbondedUtil
, ExclElem
- pressureProfileThickness
: GromacsPairElem
, TholeElem
, BondElem
, AngleElem
, ImproperElem
, DihedralElem
, CrosstermElem
, ComputeNonbondedUtil
, ExclElem
, AnisoElem
- previous_NAMD_step
: colvarproxy_namd
- printBadContacts
: SimParameters
- printExclusions
: SimParameters
- priority
: MsmGridCutoffKernel< Vtype, Mtype >
- processor
: ProxyUsageKey
, patchInfo
, computeInfo
- processorArray
: LdbCoordinator
- processors
: Rebalancer
- procID
: ProxyNodeAwareSpanningTreeMsg
- projLineVec
: nonbonded
- proStencil
: MsmBlockKernel< Vtype, Mtype >
- proxies
: processorInfo
- proxiesOn
: patchInfo
- proxyList
: ProxyListInfo
- proxylist
: ProxyTree
- proxyListLen
: PatchProxyListMsg
- proxyMgr
: BOCgroup
- proxyMsgCount
: ProxyTree
- proxyPatch
: ProxyElem
- proxyPEs
: PatchProxyListMsg
- proxyRecvSpanningTree
: SimParameters
- proxySendSpanningTree
: SimParameters
- proxyTreeBranchFactor
: SimParameters
- proxyUsage
: Rebalancer
- psiFin
: Patch
- psiSum
: GBISResults< 1 >
, ComputeNonbondedCUDA::patch_record
, GBISParamStruct
, CudaComputeNonbonded::PatchRecord
, Patch
, ProxyGBISP1ResultMsg
, ComputeNonbondedMIC::patch_record
- psiSumBox
: ComputeNonbondedPair
, ComputeNonbondedMIC::patch_record
, Patch
, ComputeNonbondedSelf
, ComputeNonbondedCUDA::patch_record
, CudaComputeNonbonded::PatchRecord
- psiSumComputeList
: Patch
- psiSumH
: ComputeNonbondedCUDA
, ComputeNonbondedMIC
- psiSumH_size
: ComputeNonbondedCUDA
- psiSumLen
: ProxyGBISP1ResultMsg