Here is a list of all class members with links to the classes they belong to:
- b -
- b
: netint
, Lattice
- B
: go_pair
, vdw_pair_params
, LJTable::TableEntry
, indexed_vdw_pair
- B12_f
: ComputeNonbondedUtil
- B14
: vdw_pair_params
, indexed_vdw_pair
- B6_f
: ComputeNonbondedUtil
- b_dim
: TopoManagerWrapper
- b_mod
: TopoManagerWrapper
- b_p()
: Lattice
- b_r()
: Lattice
- b_rot
: TopoManagerWrapper
- b_total
: nodesort
- backend_angstrom_value()
: colvarproxy_namd
- backgroundLoad
: processorInfo
- backup_file()
: colvarproxy_namd
- backward()
: CudaFFTCompute
, FFTCompute
- backward_fft()
: PmeZPencil
, PmeYPencil
, PmeXPencil
- backward_plan
: PmeXPencil
- backward_subset_fft()
: PmeYPencil
- backwardDone()
: PmePencilXYZ
- bad()
: ofstream_namd
- barrier()
: BackEnd
, LdbCoordinator
- base_init()
: PmePencil< T >
- baseDir
: QMGrpCalcMsg
- basenode()
: PatchMap
- basePatchIDList()
: PatchMap
- basePriority
: Compute
- bcastHydroBasedCounter()
: ParallelIOMgr
- bcastMolInfo()
: ParallelIOMgr
- bd
: MsmBlockKernel< Vtype, Mtype >
- begAtmID
: qmSolvData
- begin()
: Array< Elem, Size >
, ResizeArray< T >
, ResizeArrayIter< Type >
, ResizeArrayPrimIter< T >
, UniqueSetIter< Type >
- benchTimestep
: SimParameters
- berendsenPressure()
: Controller
, Sequencer
- berendsenPressure_avg
: ControllerState
- berendsenPressure_count
: ControllerState
, HomePatch::checkpoint_t
, CheckpointAtomsMsg
, Sequencer
- berendsenPressureCompressibility
: SimParameters
- berendsenPressureFreq
: SimParameters
- berendsenPressureOn
: SimParameters
- berendsenPressureRelaxationTime
: SimParameters
- berendsenPressureTarget
: SimParameters
- beta
: GBISParamStruct
- bh
: MoaData
- bin
: NL_Msm_t
- binaryOutput
: SimParameters
- binaryRefine()
: RefineTorusLB
- binaryRestart
: SimParameters
- binAtomFile
: SimParameters
- binCoorFile
: SimParameters
- bind_constants()
: ComputeNonbondedMIC
- bind_exclusions()
: ComputeNonbondedMIC
- bind_force_table()
: ComputeNonbondedMIC
- bind_lj_table()
: ComputeNonbondedMIC
- bindExclusions()
: CudaComputeNonbondedKernel
- binfill
: NL_Msm_t
- binRefFile
: SimParameters
- bins
: eABF
- binVelFile
: SimParameters
- block()
: CollectionMaster::CollectVectorSequence
- block1
: PmeGrid
- block2
: PmeGrid
- block3
: PmeGrid
- block_total
: NL_Msm_t
- blockAssign
: ComputeMsmMgr
- blocked
: CollectionMaster::CollectVectorSequence
- blockFlatIndex()
: ComputeMsmMgr
- BlockIndex()
: msm::BlockIndex
- blockIndex
: MsmBlockKernel< Vtype, Mtype >
- blockLevel
: msm::Map
- blockOfGridIndex()
: msm::Map
- blockOfGridIndexFold()
: msm::Map
- blockPositions()
: CollectionMaster
- blockSizes
: PmePencilXY
, PmePencilX
, PmePencilY
, PmePencilZ
- bm1
: PmeKSpaceCompute
- bm2
: PmeKSpaceCompute
- bm3
: PmeKSpaceCompute
- BOCCheckIn()
: Node
- BOID()
: BOID
- boltzmann()
: colvarproxy_namd
- bond_array
: Parameters
- bond_type
: bond
- BondAt1
: parm
, AmberParm7Reader::Ambertoppar
- BondAt2
: parm
, AmberParm7Reader::Ambertoppar
- bondCnt
: AtomSignature
- bondedCUDA
: SimParameters
- bondedEnergy_ti_1
: Controller
- bondedEnergy_ti_2
: Controller
- bondedEnergyDiff_f
: Controller
- bondedForce()
: ComputeBondedCUDAKernel
- BondElem
: Molecule
, BondElem
- bondEnergyIndex
: BondElem
- bondEnergyIndex_f
: BondElem
- bondEnergyIndex_ti_1
: BondElem
- bondEnergyIndex_ti_2
: BondElem
- BondHAt1
: AmberParm7Reader::Ambertoppar
, parm
- BondHAt2
: parm
, AmberParm7Reader::Ambertoppar
- BondHNum
: AmberParm7Reader::Ambertoppar
, parm
- bondIndx
: dummyData
- BondNum
: parm
, AmberParm7Reader::Ambertoppar
- bondSigIndices
: AtomSigInfo
- bondSigs
: AtomSignature
- BondValue()
: BondValue
- BOOL
: ParseOptions::DataElement
- border
: GridforceFullMainGrid
- bornRad
: ComputeNonbondedCUDA::patch_record
, ComputeNonbondedMIC::patch_record
, GBISParamStruct
, Patch
, ProxyGBISP2DataMsg
, CudaComputeNonbonded::PatchRecord
- bornRadBox
: ComputeNonbondedCUDA::patch_record
, ComputeNonbondedPair
, ComputeNonbondedSelf
, CudaComputeNonbonded::PatchRecord
, Patch
, ComputeNonbondedMIC::patch_record
- bornRadBoxClosed()
: Patch
- bornRadComputeList
: Patch
- bornRadI
: GBISInput< 2 >
- bornRadJ
: GBISInput< 2 >
- bornRadLen
: ProxyGBISP2DataMsg
- BothValid
: CollectVectorVarMsg
- Boundary
: parm
- bountToIndx
: QMAtomData
- Box
: parm
- Box< Owner, Data >
: OwnerBox< Owner, Data >
- boxClosed()
: HomePatch
, Patch
, ProxyPatch
- BoxDimensions
: AmberParm7Reader::Ambertoppar
- boxesOpen
: Patch
- brickDim()
: Rebalancer
- broadcast
: Controller
, Sequencer
- broadcastClient
: BroadcastClientElem
- BroadcastClient()
: BroadcastClient
- BroadcastClientElem()
: BroadcastClientElem
- broadcastMgr
: BOCgroup
- BroadcastMgr()
: BroadcastMgr
, BroadcastMsg
- BroadcastMsg()
: BroadcastMsg
- broadcastSet
: BOID
- bsearch()
: SortedArray< Type >
, SortableResizeArray< Type >
- bsx
: msm::Map
- bsy
: msm::Map
- bsz
: msm::Map
- bu
: NL_Msm_t
- buffer()
: msm::GridFixed< T, N >
, msm::Array< T >
, msm::GridFixed< T, N >
, msm::Array< T >
- build_alch_unpert_bond_lists()
: Molecule
- build_constant_forces()
: Molecule
- build_constorque_params()
: Molecule
- build_constraint_params()
: Molecule
- build_exclusions()
: ComputeNonbondedCUDA
, ComputeNonbondedMIC
- build_exPressure_atoms()
: Molecule
- build_extra_bonds()
: Molecule
- build_fep_flags()
: Molecule
- build_fixed_atoms()
: Molecule
- build_force_table()
: ComputeNonbondedCUDA
- build_go_arrays()
: Molecule
- build_go_params()
: Molecule
- build_go_sigmas()
: Molecule
- build_go_sigmas2()
: Molecule
- build_gridforce_params()
: Molecule
- build_gro_pair()
: Molecule
- build_langevin_params()
: Molecule
- build_lj_table()
: ComputeNonbondedCUDA
- build_movdrag_params()
: Molecule
- build_rotdrag_params()
: Molecule
- build_ss_flags()
: Molecule
- build_stirred_atoms()
: Molecule
- build_time
: AmberParm7Reader::Ambertoppar
- buildMsg()
: CollectProxyVectorInstance
- buildNodeAwarePeOrdering()
: WorkDistrib
- buildProxySpanningTree()
: ProxyMgr
- buildProxySpanningTree2()
: ProxyMgr
- buildRattleList()
: HomePatch
- buildSpanningTree()
: HomePatch
- buildSpanningTree0()
: ProxyMgr
- buildSpanTree()
: ReductionMgr
- buildSubgridsFlat()
: GridforceFullMainGrid
- buildTileLists()
: CudaTileListKernel
- buildTuples()
: ExclusionSignature
- bv
: NL_Msm_t
- bw
: NL_Msm_t
- bytesPerAtom
: Rebalancer