Here is a list of all class members with links to the classes they belong to:
- c -
- c
: CudaComputeNonbondedMsg
, ComputeMsmMgr
, ComputeNonbondedMIC::compute_record
, Lattice
, CrosstermValue
, ComputeNonbondedCUDA::compute_record
, Rebalancer::pcpair
, CudaCrosstermValue
- c0
: ComputeNonbondedUtil
- c1
: ComputeNonbondedUtil
- C12_f
: ComputeNonbondedUtil
- c12pair
: GroLJPair
- C1HERMITE
: ComputeMsmMgr
- C1Matrix()
: C1Matrix
- C1Vector()
: C1Vector
- c3
: ComputeNonbondedUtil
- c5
: ComputeNonbondedUtil
- c6
: ComputeNonbondedUtil
- C6_f
: ComputeNonbondedUtil
- c6pair
: GroLJPair
- c7
: ComputeNonbondedUtil
- c8
: ComputeNonbondedUtil
- c_dim
: TopoManagerWrapper
- c_mod
: TopoManagerWrapper
- c_p()
: Lattice
- c_r()
: Lattice
- c_rot
: TopoManagerWrapper
- c_total
: nodesort
- calc_accelMDG_E_k()
: Controller
- calc_accelMDG_force_factor()
: Controller
- calc_accelMDG_mean_std()
: Controller
- calc_error()
: ComputeNonbondedUtil
- calc_pair()
: ComputeNonbondedUtil
- calc_pair_energy()
: ComputeNonbondedUtil
- calc_pair_energy_fep()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_fep()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_go()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_int()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_les()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_pprof()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_tabener()
: ComputeNonbondedUtil
- calc_pair_energy_fullelect_ti()
: ComputeNonbondedUtil
- calc_pair_energy_go()
: ComputeNonbondedUtil
- calc_pair_energy_int()
: ComputeNonbondedUtil
- calc_pair_energy_les()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_fep()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_go()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_int()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_les()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_pprof()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_tabener()
: ComputeNonbondedUtil
- calc_pair_energy_merge_fullelect_ti()
: ComputeNonbondedUtil
- calc_pair_energy_pprof()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect_fep()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect_go()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect_les()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect_pprof()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect_tabener()
: ComputeNonbondedUtil
- calc_pair_energy_slow_fullelect_ti()
: ComputeNonbondedUtil
- calc_pair_energy_tabener()
: ComputeNonbondedUtil
- calc_pair_energy_ti()
: ComputeNonbondedUtil
- calc_pair_fullelect()
: ComputeNonbondedUtil
- calc_pair_fullelect_go()
: ComputeNonbondedUtil
- calc_pair_fullelect_les()
: ComputeNonbondedUtil
- calc_pair_fullelect_pprof()
: ComputeNonbondedUtil
- calc_pair_fullelect_tabener()
: ComputeNonbondedUtil
- calc_pair_fullelect_ti()
: ComputeNonbondedUtil
- calc_pair_go()
: ComputeNonbondedUtil
- calc_pair_les()
: ComputeNonbondedUtil
- calc_pair_merge_fullelect()
: ComputeNonbondedUtil
- calc_pair_merge_fullelect_go()
: ComputeNonbondedUtil
- calc_pair_merge_fullelect_les()
: ComputeNonbondedUtil
- calc_pair_merge_fullelect_pprof()
: ComputeNonbondedUtil
- calc_pair_merge_fullelect_tabener()
: ComputeNonbondedUtil
- calc_pair_merge_fullelect_ti()
: ComputeNonbondedUtil
- calc_pair_pprof()
: ComputeNonbondedUtil
- calc_pair_slow_fullelect()
: ComputeNonbondedUtil
- calc_pair_slow_fullelect_go()
: ComputeNonbondedUtil
- calc_pair_slow_fullelect_les()
: ComputeNonbondedUtil
- calc_pair_slow_fullelect_pprof()
: ComputeNonbondedUtil
- calc_pair_slow_fullelect_tabener()
: ComputeNonbondedUtil
- calc_pair_slow_fullelect_ti()
: ComputeNonbondedUtil
- calc_pair_tabener()
: ComputeNonbondedUtil
- calc_pair_ti()
: ComputeNonbondedUtil
- calc_self()
: ComputeNonbondedUtil
- calc_self_energy()
: ComputeNonbondedUtil
- calc_self_energy_fep()
: ComputeNonbondedUtil
- calc_self_energy_fullelect()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_fep()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_go()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_int()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_les()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_pprof()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_tabener()
: ComputeNonbondedUtil
- calc_self_energy_fullelect_ti()
: ComputeNonbondedUtil
- calc_self_energy_go()
: ComputeNonbondedUtil
- calc_self_energy_int()
: ComputeNonbondedUtil
- calc_self_energy_les()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_fep()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_go()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_int()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_les()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_pprof()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_tabener()
: ComputeNonbondedUtil
- calc_self_energy_merge_fullelect_ti()
: ComputeNonbondedUtil
- calc_self_energy_pprof()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect_fep()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect_go()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect_les()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect_pprof()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect_tabener()
: ComputeNonbondedUtil
- calc_self_energy_slow_fullelect_ti()
: ComputeNonbondedUtil
- calc_self_energy_tabener()
: ComputeNonbondedUtil
- calc_self_energy_ti()
: ComputeNonbondedUtil
- calc_self_fullelect()
: ComputeNonbondedUtil
- calc_self_fullelect_go()
: ComputeNonbondedUtil
- calc_self_fullelect_les()
: ComputeNonbondedUtil
- calc_self_fullelect_pprof()
: ComputeNonbondedUtil
- calc_self_fullelect_tabener()
: ComputeNonbondedUtil
- calc_self_fullelect_ti()
: ComputeNonbondedUtil
- calc_self_go()
: ComputeNonbondedUtil
- calc_self_les()
: ComputeNonbondedUtil
- calc_self_merge_fullelect()
: ComputeNonbondedUtil
- calc_self_merge_fullelect_go()
: ComputeNonbondedUtil
- calc_self_merge_fullelect_les()
: ComputeNonbondedUtil
- calc_self_merge_fullelect_pprof()
: ComputeNonbondedUtil
- calc_self_merge_fullelect_tabener()
: ComputeNonbondedUtil
- calc_self_merge_fullelect_ti()
: ComputeNonbondedUtil
- calc_self_pprof()
: ComputeNonbondedUtil
- calc_self_slow_fullelect()
: ComputeNonbondedUtil
- calc_self_slow_fullelect_go()
: ComputeNonbondedUtil
- calc_self_slow_fullelect_les()
: ComputeNonbondedUtil
- calc_self_slow_fullelect_pprof()
: ComputeNonbondedUtil
- calc_self_slow_fullelect_tabener()
: ComputeNonbondedUtil
- calc_self_slow_fullelect_ti()
: ComputeNonbondedUtil
- calc_self_tabener()
: ComputeNonbondedUtil
- calc_self_ti()
: ComputeNonbondedUtil
- calcAtomsInEachPatch()
: ParallelIOMgr
- calcBlockWork()
: ComputeMsmMgr
- calcFixVirial()
: Sequencer
- calcFullPair
: ComputeNonbondedUtil
- calcFullPairEnergy
: ComputeNonbondedUtil
- calcFullSelf
: ComputeNonbondedUtil
- calcFullSelfEnergy
: ComputeNonbondedUtil
- calcGBIS()
: ComputeNonbondedUtil
- calcGcutWork()
: ComputeMsmMgr
- calcGridCoord()
: PmeRealSpaceCompute
- calcKineticEnergy()
: Sequencer
- calcMergePair
: ComputeNonbondedUtil
- calcMergePairEnergy
: ComputeNonbondedUtil
- calcMergeSelf
: ComputeNonbondedUtil
- calcMergeSelfEnergy
: ComputeNonbondedUtil
- calcMOPAC()
: ComputeQMMgr
- calcORCA()
: ComputeQMMgr
- calcPair
: ComputeNonbondedUtil
- calcPairEnergy
: ComputeNonbondedUtil
- calcPressure()
: Controller
- calcSelf
: ComputeNonbondedUtil
- calcSelfEnergy
: ComputeNonbondedUtil
- calcSlowPair
: ComputeNonbondedUtil
- calcSlowPairEnergy
: ComputeNonbondedUtil
- calcSlowSelf
: ComputeNonbondedUtil
- calcSlowSelfEnergy
: ComputeNonbondedUtil
- calculate()
: colvarproxy_namd
, GlobalMaster
, GlobalMasterIMD
, GlobalMasterTcl
, GlobalMasterTest
- calcUSR()
: ComputeQMMgr
- calpmf()
: eABF
, eABF1D
- CapInfo
: AmberParm7Reader::Ambertoppar
- CapInfo2
: AmberParm7Reader::Ambertoppar
- cellBasisVector1
: SimParameters
- cellBasisVector2
: SimParameters
- cellBasisVector3
: SimParameters
- cellcenter
: NL_Msm_t
- cellcenter_f
: NL_Msm_t
- cellOrigin
: SimParameters
- cellvec1
: NL_Msm_t
- cellvec1_f
: NL_Msm_t
- cellvec2
: NL_Msm_t
- cellvec2_f
: NL_Msm_t
- cellvec3
: NL_Msm_t
- cellvec3_f
: NL_Msm_t
- center
: GridforceFullBaseGrid
, GridforceLiteGrid
, PatchMap
- cg
: EwaldParticle
, PmeParticle
- chain()
: PDBAtom
- changedAtoms()
: GlobalMaster
- changedForces()
: GlobalMaster
- changedGridObjs()
: GlobalMaster
- changedGroups()
: GlobalMaster
- charge
: ComputeExtAtom
, ComputeFmmSerialAtom
, ComputeGBISAtom
, ComputeMsmSerialAtom
, ComputeQMAtom
, ComputeQMPntChrg
, QMAtomData
, QMGrpCalcMsg
, QMForce
, gather_t< T, order >
, msm::AtomCoord
, CompAtom
, atom_constants
- chargeGridReady()
: ComputePmeMgr
- chargeGridSubmitted()
: ComputePmeMgr
- chargeGridSubmittedCount
: ComputePmeMgr
- chargeIdx
: BasicAtomInfo
, OutputAtomRecord::shortVals
- Charges
: parm
, AmberParm7Reader::Ambertoppar
- charges_time
: ComputePmeMgr
- check()
: GlobalMaster
- check_atom_id()
: colvarproxy_namd
- check_charges_count
: ComputePmeMgr
- check_consistency()
: ParseOptions
- check_forces_count
: ComputePmeMgr
- checkexcl()
: Molecule
- checkIn()
: OwnerBox< Owner, Data >
- checkMap()
: AtomMap
, ComputeMap
, PatchMap
- checkOut()
: OwnerBox< Owner, Data >
- checkpoint
: CheckpointMsg
, HomePatch
- checkpoint_berendsenPressure_count
: Sequencer
- checkpoint_lattice
: Controller
- checkpoint_state
: Controller
- checkpoint_stored
: Controller
- checkpoint_task
: Controller
, HomePatch
- CheckpointMsg
: Controller
- checkpoints
: Controller
, HomePatch
- checksize
: GridforceFullBaseGrid
, GridforceLiteGrid
- checksum
: StreamMessage
- child
: Patch
- cid
: CudaComputeNonbonded::ComputeRecord
, SplitComputesMsg
, PatchMap
, Compute
, GBISParamStruct
- clear()
: HashPool< T >
, PmeAtomStorage
, ofstream_namd
, MGridforceParamsList
, msm::PriorityQueue< T >
, ResizeArray< T >
, UniqueSet< Elem >
, Entry< Elem >
, EntryGlob< Elem >
, UniqueSetRaw< Elem >
- Clear()
: AGroup
, ALambdaManager
- clear_atom()
: colvarproxy_namd
- clear_atom_group()
: colvarproxy_namd
- clear_volmap()
: colvarproxy_namd
- clearChain()
: Entry< Elem >
, EntryGlob< Elem >
- clearChanged()
: GlobalMaster
- clearTileListStat()
: CudaTileListKernel
- clientAdd()
: OwnerBox< Owner, Data >
- clientClose()
: OwnerBox< Owner, Data >
- clientOpen()
: OwnerBox< Owner, Data >
- clientRemove()
: OwnerBox< Owner, Data >
- clients
: GlobalMasterIMD
- clipBlockToIndexRange()
: msm::Map
- clipBlockToIndexRangeFold()
: msm::Map
- clipIndexToLevel()
: msm::Map
- cloneCompute()
: ComputeMap
- close()
: Box< Owner, Data >
, ofstream_namd
, OwnerBox< Owner, Data >
- close_dcdfile()
: SimParameters
- close_output_stream()
: colvarproxy_namd
- close_veldcdfile()
: SimParameters
- ClusterCoorElem()
: ClusterCoorElem
- ClusterElem()
: ClusterElem
- clusterId
: ClusterElem
, ClusterSizeMsg
, ClusterCoorElem
, ClusterCoorMsg
- CMAPIndex
: AmberParm7Reader::Ambertoppar
- CMAPParameter
: AmberParm7Reader::Ambertoppar
- CMAPResolution
: AmberParm7Reader::Ambertoppar
- CMAPTermCount
: AmberParm7Reader::Ambertoppar
- CMAPTypeCount
: AmberParm7Reader::Ambertoppar
- Cn1
: parm
, AmberParm7Reader::Ambertoppar
- Cn2
: parm
, AmberParm7Reader::Ambertoppar
- Cno
: parm
, AmberParm7Reader::Ambertoppar
- cntRecvs
: msm::PatchData
- cntRecvsCharge
: MsmBlockKernel< Vtype, Mtype >
- cntRecvsPotential
: MsmBlockKernel< Vtype, Mtype >
- cntVirialContrib
: ComputeMsmMgr
- code
: DataMessage
- col
: eABF
- COLDOn
: SimParameters
- COLDRate
: SimParameters
- COLDTemp
: SimParameters
- collection
: Controller
, Sequencer
- CollectionMaster()
: CollectionMaster
- CollectionMgr()
: CollectionMgr
- collectionMgr
: BOCgroup
- collectLoads()
: LdbCoordinator
- CollectProxyVectorInstance()
: CollectProxyVectorInstance
- CollectProxyVectorSequence()
: CollectProxyVectorSequence
- CollectVectorInstance()
: CollectionMaster::CollectVectorInstance
, CollectionMgr::CollectVectorInstance
- CollectVectorSequence()
: CollectionMaster::CollectVectorSequence
- collMsg
: Rebalancer
- COLUMNS
: PDBData
- columnsize
: ComputeNonbondedUtil
, Parameters
- colvarproxy_namd
: ScriptTcl
, colvarproxy_namd
- colvars
: Node
- colvarsOn
: SimParameters
- COMM
: MsmTimer
- commOnly
: ComputeNonbondedUtil
, SimParameters
- comMove
: SimParameters
- Communicate()
: Communicate
- compare()
: HashPoolAdaptorT< T >
, ProxyUsageKey
- compareChecksums()
: Controller
- compAtom
: CudaComputeNonbonded::PatchRecord
- compAtomP
: patchDataStrc
- COMPND
: PDBData
- Compute()
: Compute
- compute
: NonbondedCUDASkipMsg
, NonbondedMICSkipMsg
, PmeAtomMsg
, PmeForceMsg
, PmeLaunchMsg
, LocalWorkMsg
, FinishWorkMsg
, ComputeMap
, ComputeMsmMgr
, MsmGridCutoffKernel< Vtype, Mtype >
- compute_a()
: GridforceFullBaseGrid
- compute_b()
: GridforceFullBaseGrid
, GridforceFullMainGrid
, GridforceFullSubGrid
- compute_d2V()
: GridforceFullBaseGrid
- compute_d3V()
: GridforceFullBaseGrid
- compute_derivative_grids()
: GridforceLiteGrid
- compute_dV()
: GridforceFullBaseGrid
- compute_energy()
: PmeKSpace
- compute_energy_orthogonal_helper()
: PmeKSpace
- compute_energy_orthogonal_subset()
: PmeKSpace
- compute_forces()
: PmeRealSpace
- compute_forces_order4_partial()
: PmeRealSpace
- compute_LJcorrection()
: Molecule
- compute_V()
: GridforceFullBaseGrid
- compute_VdV()
: GridforceFullBaseGrid
, GridforceGrid
, GridforceFullMainGrid
, GridforceLiteGrid
- compute_wts()
: GridforceLiteGrid
- computeAlchWork()
: Controller
- ComputeAngles()
: ComputeAngles
- ComputeAniso()
: ComputeAniso
- computeArray
: LdbCoordinator
- computeAverage()
: Rebalancer
- computeBgPairHeap
: Rebalancer
- computeBgSelfHeap
: Rebalancer
- ComputeBondedCUDAKernel()
: ComputeBondedCUDAKernel
- ComputeBonds()
: ComputeBonds
- computeChecksum
: Controller
- ComputeConsForce()
: ComputeConsForce
- ComputeConsForceMsg()
: ComputeConsForceMsg
- ComputeConsTorque()
: ComputeConsTorque
- ComputeCrossterms()
: ComputeCrossterms
- computeCUDAMgr
: BOCgroup
- ComputeCUDAMgr()
: ComputeCUDAMgr
- ComputeCylindricalBC()
: ComputeCylindricalBC
- ComputeData()
: ComputeMap::ComputeData
- ComputeDihedrals()
: ComputeDihedrals
- ComputeDPMEDataMsg()
: ComputeDPMEDataMsg
- ComputeDPMEResultsMsg()
: ComputeDPMEResultsMsg
- ComputeEField()
: ComputeEField
- ComputeEwald()
: ComputeEwald
- ComputeExcls()
: ComputeExcls
- ComputeExt()
: ComputeExt
- ComputeExtMgr()
: ComputeExtMgr
- computeExtMgr
: BOCgroup
- ComputeFmmSerial()
: ComputeFmmSerial
- ComputeFmmSerialMgr()
: ComputeFmmSerialMgr
- computeFmmSerialMgr
: BOCgroup
- computeForce()
: AnisoElem
, AngleElem
, BondElem
, CrosstermElem
, DihedralElem
, GromacsPairElem
, ImproperElem
, ExclElem
, TholeElem
- ComputeFullDirect()
: ComputeFullDirect
- ComputeGBISser()
: ComputeGBISser
- ComputeGBISserMgr()
: ComputeGBISserMgr
- computeGBISserMgr
: BOCgroup
- ComputeGlobal
: HomePatch
, ComputeGlobal
- ComputeGlobalDataMsg()
: ComputeGlobalDataMsg
- computeGlobalObject
: ComputeMgr
- ComputeGlobalResultsMsg()
: ComputeGlobalResultsMsg
- computeGlobalResultsMsgMasterSeq
: ComputeMgr
- computeGlobalResultsMsgs
: ComputeMgr
- computeGlobalResultsMsgSeq
: ComputeMgr
- ComputeGridForce()
: ComputeGridForce
- ComputeGromacsPair()
: ComputeGromacsPair
- ComputeHomePatch()
: ComputeHomePatch
- ComputeHomePatches()
: ComputeHomePatches
- ComputeHomeTuples()
: ComputeHomeTuples< T, S, P >
- ComputeImpropers()
: ComputeImpropers
- ComputeLCPO()
: ComputeLCPO
- computeLoad
: processorInfo
- ComputeMap()
: ComputeMap
- computeMap
: LdbCoordinator
, Node
- computeMapFilename
: SimParameters
- computeMax()
: Rebalancer
- ComputeMgr
: ComputeMap
, ComputeMgr
- computeMgr
: BOCgroup
, Node
- ComputeMoa()
: ComputeMoa
- ComputeMsm()
: ComputeMsm
- ComputeMsmMgr()
: ComputeMsmMgr
- computeMsmMgr
: BOCgroup
- computeMsmMsaMgr
: BOCgroup
- ComputeMsmSerial()
: ComputeMsmSerial
- ComputeMsmSerialMgr()
: ComputeMsmSerialMgr
- computeMsmSerialMgr
: BOCgroup
- ComputeNonbondedCUDA()
: ComputeNonbondedCUDA
- ComputeNonbondedMIC()
: ComputeNonbondedMIC
- ComputeNonbondedPair()
: ComputeNonbondedPair
- ComputeNonbondedSelf()
: ComputeNonbondedSelf
- ComputeNonbondedUtil()
: ComputeNonbondedUtil
- computePairHeap
: Rebalancer
- ComputePatch()
: ComputePatch
- ComputePatchPair()
: ComputePatchPair
- ComputePme
: ComputePmeMgr
, NodePmeMgr
, ComputePme
- ComputePmeCUDA()
: ComputePmeCUDA
- ComputePmeCUDADevice()
: ComputePmeCUDADevice
- ComputePmeCUDAMgr()
: ComputePmeCUDAMgr
- computePmeCUDAMgr
: BOCgroup
- ComputePmeCUDAMgr_SDAG_CODE
: ComputePmeCUDAMgr
- ComputePmeMgr
: NodePmeMgr
, ComputePme
, ComputePmeMgr
- computePmeMgr
: BOCgroup
- ComputePmeUtil()
: ComputePmeUtil
- ComputeQM()
: ComputeQM
- ComputeQMAtom()
: ComputeQMAtom
- computeQMMgr
: BOCgroup
- ComputeQMMgr()
: ComputeQMMgr
- ComputeQMPntChrg()
: ComputeQMPntChrg
- computeRecords
: ComputeNonbondedMIC
, ComputeNonbondedCUDA
- ComputeRestraints()
: ComputeRestraints
- computes
: Rebalancer
- computesChanged
: ComputeNonbondedMIC
, ComputeNonbondedCUDA
- ComputeSelfAngles()
: ComputeSelfAngles
- ComputeSelfAniso()
: ComputeSelfAniso
- ComputeSelfBonds()
: ComputeSelfBonds
- ComputeSelfCrossterms()
: ComputeSelfCrossterms
- ComputeSelfDihedrals()
: ComputeSelfDihedrals
- ComputeSelfExcls()
: ComputeSelfExcls
- ComputeSelfGromacsPair()
: ComputeSelfGromacsPair
- computeSelfHeap
: Rebalancer
- ComputeSelfImpropers()
: ComputeSelfImpropers
- ComputeSelfThole()
: ComputeSelfThole
- ComputeSelfTuples()
: ComputeSelfTuples< T, S, P >
- computeSet
: processorInfo
- ComputeSphericalBC()
: ComputeSphericalBC
- computesSortedByPriority
: Patch
- ComputeStir()
: ComputeStir
- ComputeTclBC()
: ComputeTclBC
- ComputeThole()
: ComputeThole
- computeType
: Compute
- CONECT
: PDBData
- config
: GlobalMasterEasy
- configFileInit()
: NamdState
- configLines
: QMGrpCalcMsg
- configList
: Node
- ConfigList()
: ConfigList
- configListInit()
: NamdState
- ConfigListNode()
: ConfigList::ConfigListNode
- consForce
: Molecule
- consForceFile
: SimParameters
- consForceIndexes
: Molecule
- consForceOn
: SimParameters
- consForceScaling
: SimParameters
- const_begin()
: Array< Elem, Size >
, ResizeArray< T >
- const_end()
: Array< Elem, Size >
, ResizeArray< T >
- const_iterator
: Array< Elem, Size >
, ResizeArray< T >
- constant()
: Matrix4
- constants
: QMGrpCalcMsg
- consTorqueAxisFile
: SimParameters
- consTorqueFile
: SimParameters
- consTorqueGlobVal
: SimParameters
- consTorqueIndexes
: Molecule
- consTorqueOn
: SimParameters
- consTorqueParams
: Molecule
- consTorquePivotFile
: SimParameters
- consTorqueValFile
: SimParameters
- ConstPointer()
: ConstPointer
- constraintExp
: SimParameters
- constraintScaling
: SimParameters
- constraintsOn
: SimParameters
- constrXOn
: SimParameters
- constrYOn
: SimParameters
- constrZOn
: SimParameters
- cont
: GridforceFullBaseGrid
- contributeHostDeviceLDB()
: WorkDistrib
- contributeToParent()
: NodeProxyMgr
- Controller
: ScriptTcl
, Controller
, NamdState
- ControllerBroadcasts()
: ControllerBroadcasts
- controllerExpected
: LdbCoordinator
- controllerReported
: LdbCoordinator
- controllerThread
: LdbCoordinator
- controlNumDegFreedom
: Controller
- controlPressure
: Controller
- controlPressure_nbond
: Controller
- controlPressure_normal
: Controller
- controlPressure_slow
: Controller
- convertscale()
: eABF1D
- cookie
: MsmGridCutoff
, MsmC1HermiteGridCutoff
- coord
: GBISCoordMsg
, msm::PatchData
, QMPntChrgMsg
, MoveAtomMsg
, QMCoordMsg
, TopoManagerWrapper
, ExtCoordMsg
, MsmSerialCoordMsg
, FmmSerialCoordMsg
- coordArray()
: msm::PatchData
- coordinate()
: Output
- coordinateNeeded()
: Output
- coordinates()
: PDBAtom
- coords
: Node
, TopoManagerWrapper
- coordtmp
: GlobalMasterIMD
- coordtmpsize
: GlobalMasterIMD
- copy()
: msm::Array< T >
, ResizeArray< T >
- copyAtoms()
: PmeRealSpaceCompute
, CudaPmeRealSpaceCompute
- copyDataDeviceToDevice()
: CudaPmeTranspose
- copyDataDeviceToHost()
: CudaPmeTranspose
- copyDataHostToDevice()
: CudaPmeTranspose
- copyDataToPeerDeviceYZX()
: CudaPmeTranspose
- copyDataToPeerDeviceZXY()
: CudaPmeTranspose
- copyPencils()
: ComputePmeMgr
- copyResults()
: ComputePmeMgr
- core
: ReplicaDcdAckMsg
, ReplicaDcdDataMsg
, ReplicaDcdInitMsg
, DataMessage
- corr_table
: ComputeNonbondedUtil
- correctMomentum()
: Controller
, Sequencer
- cosAngles
: SimParameters
- coulEnergy
: GBISForceMsg
- coulomb_radius_offset
: SimParameters
- count
: ComputeGlobalDataMsg
, PmeSharedTransMsg
, PmeSharedUntransMsg
- countall
: eABF1D
- counter
: TaggedMsg
- county
: eABF1D
- cpuloads
: LocalLBInfoMsg
- CpuPmeAtomStorage()
: CpuPmeAtomStorage
- cr_sortop_distance()
: cr_sortop_distance
- cr_sortop_reverse_priority()
: cr_sortop_reverse_priority
- createAtomLists()
: WorkDistrib
- createCommands()
: Measure
- createComputes()
: ComputeMgr
- createCudaComputeNonbonded()
: ComputeCUDAMgr
- createDevicesAndAtomFiler()
: ComputePmeCUDAMgr
- createHomePatch()
: PatchMgr
- createHomePatches()
: ParallelIOMgr
, WorkDistrib
- createLoadBalancer()
: LdbCoordinator
- createPatchProxyListMsg()
: PatchProxyListMsg
- createProxies()
: ProxyMgr
- createProxy()
: ProxyMgr
- createProxyInfo()
: NodeProxyMgr
- createSpanningTree()
: Rebalancer
- createSTForHomePatches()
: NodeProxyMgr
- cross
: Vector
, AVector
, Vector
- crossterm_array
: Parameters
- crossterm_params()
: crossterm_params
- crossterm_type
: crossterm
- crosstermCnt
: AtomSignature
- CrosstermElem()
: CrosstermElem
, Molecule
, CrosstermElem
- crosstermEnergyIndex
: CrosstermElem
- crosstermEnergyIndex_f
: CrosstermElem
- crosstermEnergyIndex_ti_1
: CrosstermElem
- crosstermEnergyIndex_ti_2
: CrosstermElem
- crosstermSigIndices
: AtomSigInfo
- crosstermSigs
: AtomSignature
- CRYST1
: PDBData
- CUBIC
: ComputeMsmMgr
- cuda_atoms_alloc
: ComputePmeMgr
- cuda_atoms_count
: ComputePmeMgr
- cuda_busy
: ComputePmeMgr
- cuda_lock
: ComputePmeMgr
- cuda_submit_charges()
: ComputePmeMgr
- cuda_submit_charges_deque
: ComputePmeMgr
- cudaAtomList
: ProxyDataMsg
- cudaAtomPtr
: Patch
- CudaComputeGBISKernel()
: CudaComputeGBISKernel
- CudaComputeNonbonded()
: CudaComputeNonbonded
- CudaComputeNonbondedKernel()
: CudaComputeNonbondedKernel
- CudaFFTCompute()
: CudaFFTCompute
- CudaNonbondedTables()
: CudaNonbondedTables
- CudaPmeAtomStorage()
: CudaPmeAtomStorage
- CudaPmeKSpaceCompute()
: CudaPmeKSpaceCompute
- CudaPmePencilX()
: CudaPmePencilX
- CudaPmePencilXY()
: CudaPmePencilXY
- CudaPmePencilXYZ()
: CudaPmePencilXYZ
- CudaPmePencilY()
: CudaPmePencilY
- CudaPmePencilZ()
: CudaPmePencilZ
- CudaPmeRealSpaceCompute()
: CudaPmeRealSpaceCompute
- CudaPmeTranspose()
: CudaPmeTranspose
- CudaPmeXInitMsg()
: CudaPmeXInitMsg
- CudaPmeXYInitMsg()
: CudaPmeXYInitMsg
- CudaPmeXYZInitMsg()
: CudaPmeXYZInitMsg
- CudaTileListKernel()
: CudaTileListKernel
- cumAlchWork
: Controller
- curMFlopStep
: Node
- curTimeStep
: Node
- Cutcap
: parm
- cutoff
: GBISParamStruct
, SimParameters
, ComputeNonbondedUtil
, go_val
, QMGrpCalcMsg
- cutoff2
: ComputeNonbondedUtil
- cutoff2_f
: ComputeNonbondedUtil
- cutoff_3
: ComputeNonbondedUtil
- cutoff_3_f
: ComputeNonbondedUtil
- cutoff_6
: ComputeNonbondedUtil
- cutoff_6_f
: ComputeNonbondedUtil
- cvm::atom
: colvarproxy_namd
- cycleBarrier()
: Sequencer
, Controller
- cylindricalBCAxis
: SimParameters
- cylindricalBCexp1
: SimParameters
- cylindricalBCexp2
: SimParameters
- cylindricalBCk1
: SimParameters
- cylindricalBCk2
: SimParameters
- cylindricalBCl1
: SimParameters
- cylindricalBCl2
: SimParameters
- cylindricalBCOn
: SimParameters
- cylindricalBCr1
: SimParameters
- cylindricalBCr2
: SimParameters
- cylindricalCenter
: SimParameters