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ANIEnergy
ARCFileFilter
ASULimit
AdderDoubleArray
Adiabatic
AlchemicalOptions
AlchemicalOptions.AlchemicalOptionGroup
AlchemicalParameters
AlgorithmFunctions
AlgorithmListener
AlgorithmUtils
AlgorithmsScript
AlgorithmsTest
AminoAcidUtils
AminoAcidUtils.AA
AminoAcidUtils.AIB
AminoAcidUtils.ALA
AminoAcidUtils.ARG
AminoAcidUtils.ASD
AminoAcidUtils.ASH
AminoAcidUtils.ASN
AminoAcidUtils.ASP
AminoAcidUtils.AminoAcid1
AminoAcidUtils.AminoAcid3
AminoAcidUtils.AminoAcidBackboneAtoms
AminoAcidUtils.CYD
AminoAcidUtils.CYS
AminoAcidUtils.CYX
AminoAcidUtils.GLD
AminoAcidUtils.GLH
AminoAcidUtils.GLN
AminoAcidUtils.GLU
AminoAcidUtils.GLY
AminoAcidUtils.GlycineBackboneAtoms
AminoAcidUtils.HID
AminoAcidUtils.HIE
AminoAcidUtils.HIS
AminoAcidUtils.ILE
AminoAcidUtils.LEU
AminoAcidUtils.LYD
AminoAcidUtils.LYS
AminoAcidUtils.MET
AminoAcidUtils.ORN
AminoAcidUtils.PCA
AminoAcidUtils.PHE
AminoAcidUtils.PRO
AminoAcidUtils.ProlineBackboneAtoms
AminoAcidUtils.ResiduePosition
AminoAcidUtils.SER
AminoAcidUtils.SideChainType
AminoAcidUtils.THR
AminoAcidUtils.TRP
AminoAcidUtils.TYD
AminoAcidUtils.TYR
AminoAcidUtils.VAL
AmoebaGKCavitationForce
AmoebaGeneralizedKirkwoodForce
AmoebaMultipoleForce
AmoebaTorsionTorsionForce
AmoebaVdwForce
AmoebaWcaDispersionForce
AndersenThermostat
Angle
AngleForce
AngleTorsion
AngleTorsionForce
AngleTorsionType
AngleType
AngleType.AngleFunction
AngleType.AngleMode
AnnealOptions
AnnealingSchedule
ArrayItemGenerator
AssemblyState
AtomOverlapLoop
AtomSelectionOptions
AtomSelectionOptions.AtomSelectionOptionGroup
AtomType
AtomicDoubleArray
AtomicDoubleArray.AtomicDoubleArrayImpl
AtomicDoubleArray3D
AtomicDoubleArray3D.Operation
AtomicDoubleArray3D.ParallelRegion3D
AtomicDoubleArray3D.ParallelRegion3D.IntegerForLoop3D
BARFilter
BackendClassLoader
BackendFileInputStream
BackendFileInputStream.Result
BackendFileOutputStream
BackendFileOutputStream.Result
BackendFileReader
BackendFileWriter
BackendInfo
BackendInfo.State
Barostat
BarostatOptions
BarostatOptions.BarostatOptionGroup
BarrierAction
BaseType
BellCurveSwitch
BennettAcceptanceRatio
Berendsen
BetterBeeman
BioType
BoltzmannMC
Bond
BondArray
BondForce
BondType
BondType.BondFunction
BondedEnergy
BondedTerm
BondedTerm.BondedComparator
BondedUtils
BooleanArrayBuf
BooleanArrayBuf_1
BooleanArrayReductionBuf
BooleanArrayReductionBuf_1
BooleanBuf
BooleanItemBuf
BooleanItemReductionBuf
BooleanMatrixBuf
BooleanMatrixBuf_1
BooleanMatrixReductionBuf
BooleanMatrixReductionBuf_1
BooleanOp
BootStrapStatistics
BootstrappableEstimator
BornGradRegion
BornGradRegion.BornCRLoop
BornRadiiRegion
BornRadiiRegion.BornRadiiLoop
BornTanhRescaling
Buf
BulkSolventDensityRegion
BulkSolventList
BulkSolventRowRegion
BulkSolventSliceRegion
Bussi
ByteArrayBuf
ByteArrayBuf_1
ByteArrayReductionBuf
ByteArrayReductionBuf_1
ByteBuf
ByteItemBuf
ByteItemReductionBuf
ByteMatrixBuf
ByteMatrixBuf_1
ByteMatrixReductionBuf
ByteMatrixReductionBuf_1
ByteOp
ByteSequence
ByteSwap
CCP4MapFilter
CCP4MapWriter
CIFFilter
CIFFilter
CIFHeader
CMMotionRemover
CNSFilter
CNSMapWriter
COMRestraint
CarbonSASACRLoop
CcmaConstraint
CcmaConstraint.MatrixWalker
CentroidBondForce
ChandlerCavitation
Channel
ChannelClosedException
ChannelGroup
ChannelGroup.AcceptThread
ChannelGroupClosedException
CharacterArrayBuf
CharacterArrayBuf_1
CharacterArrayReductionBuf
CharacterArrayReductionBuf_1
CharacterBuf
CharacterItemBuf
CharacterItemReductionBuf
CharacterMatrixBuf
CharacterMatrixBuf_1
CharacterMatrixReductionBuf
CharacterMatrixReductionBuf_1
CharacterOp
ChargeType
Clustering
Clustering.Conformation
Comm
Comm.FloodReceiveIORequest
CommPattern
CommRequest
CommStatus
Complex
Complex.PassData
Complex3D
Complex3DParallel
ComplexNumber
CompositeCurve
CompositeSwitch
Configuration
ConformationScan
ConformationScan.StateContainer
ConnectListener
ConnollyRegion
ConnollyRegion.VolumeLoop
ConstantSwitch
Constants
Constants
Constants
Constraint
Context
ConvexHullOps
ConvolutionRegion
CoordinateFileFilter
CosineWave
CoulombTensorGlobal
CoulombTensorQI
Crystal
CrystalMinimize
CrystalPotential
CrystalReciprocalSpace
CrystalStats
CrystalSystem
CustomAngleForce
CustomBondForce
CustomCompoundBondForce
CustomExternalForce
CustomGBForce
CustomIntegrator
CustomMTSIntegrator
CustomMTSLangevinIntegrator
CustomNonbondedForce
DTDResolver
DYNFileFilter
DYNFilter
DataContainer
DataInputStream
DataOutputStream
DataRefinementOptions
DataSet
DefaultRandom
DiffractionData
DiffractionFile
DiffractionFileFilter
DiffractionRefinementData
DirectRegion
DirectRegion.DirectLoop
DirectoryUtils
DispersionRegion
DispersionRegion.DispersionLoop
DistanceMatrix
DistanceMatrixFileFilter
DistanceMatrixFilter
DistanceRegion
DistanceRegion.DistanceLoop
Double3
DoubleArray
DoubleArray3D
DoubleArrayBuf
DoubleArrayBuf_1
DoubleArrayReductionBuf
DoubleArrayReductionBuf_1
DoubleBuf
DoubleIndexPair
DoubleItemBuf
DoubleItemReductionBuf
DoubleMath
DoubleMatrixBuf
DoubleMatrixBuf_1
DoubleMatrixFile
DoubleMatrixFile.Reader
DoubleMatrixFile.Writer
DoubleMatrixReductionBuf
DoubleMatrixReductionBuf_1
DoubleOp
DoubleXMLAdapter
DoublesDataSet
DownloadUtils
DualTopologyEnergy
DynamicIntegerSchedule
DynamicLongSchedule
DynamicsOptions
DynamicsOptions.DynamicsOptionGroup
ESVFileFilter
ESVFilter
EliminatedRotamers
EmptyBooleanBuf
EmptyByteBuf
EmptyCharacterBuf
EmptyDoubleBuf
EmptyFloatBuf
EmptyIntegerBuf
EmptyLongBuf
EmptyObjectBuf
EmptyShortBuf
EmptySigned16BitIntegerBuf
EmptySigned8BitIntegerBuf
EmptyUnsigned16BitIntegerBuf
EmptyUnsigned8BitIntegerBuf
Energy
Energy.StateContainer
EnergyException
EnergyExpansion
EnergyRegion
EnergyRegion.EnergyLoop
Erf
EstimateBootstrapper
EwaldParameters
EwaldTensorGlobal
EwaldTensorQI
ExpAnnealSchedule
ExpandInducedDipolesRegion
ExpandInducedDipolesRegion.ExpandInducedDipoleLoop
ExtendedSystem
FFTRegion
FFTXYLoop
FFTZIZLoop
FFTZLoop
FFXClient
FFXCommand
FFXContext
FFXExec
FFXFileFilter
FFXLocale
FFXScript
FFXServer
FFXSystem
FFXTest
FFXTornado
FileOpener
FileUtils
Files
FixedChargeAlchemicalForces
FixedChargeGBForce
FixedChargeNonbondedForce
FixedIntegerSchedule
FixedLongSchedule
FlatEndAnnealSchedule
Float3
FloatArrayBuf
FloatArrayBuf_1
FloatArrayReductionBuf
FloatArrayReductionBuf_1
FloatBuf
FloatItemBuf
FloatItemReductionBuf
FloatMath
FloatMatrixBuf
FloatMatrixBuf_1
FloatMatrixReductionBuf
FloatMatrixReductionBuf_1
FloatOp
Force
ForceField
ForceFieldEnergy
ForceFieldEnergy.BondedTermLoop
ForceFieldEnergy.GradInitLoop
ForceFieldEnergy.GradReduceLoop
ForceFieldFileFilter
ForceFieldFilter
FormFactor
FourBodyEnergyRegion
FourBodyEnergyRegion.QuadsEnergyLoop
FrontendFileReader
FrontendFileReader.FileHandler
FrontendFileReader.FileHandler.InputFileCloseInvocation
FrontendFileReader.FileHandler.InputFileOpenInvocation
FrontendFileReader.FileHandler.InputFileReadInvocation
FrontendFileReader.FileHandler.InputFileSkipInvocation
FrontendFileReader.FileHandler.Invocation
FrontendFileWriter
FrontendFileWriter.FileHandler
FrontendFileWriter.FileHandler.Invocation
FrontendFileWriter.FileHandler.OutputFileCloseInvocation
FrontendFileWriter.FileHandler.OutputFileFlushInvocation
FrontendFileWriter.FileHandler.OutputFileOpenInvocation
FrontendFileWriter.FileHandler.OutputFileWriteInvocation
FunctionDataCurve
GKCavitationForce
GKEnergyGlobal
GKEnergyQI
GKEnergyRegion
GKEnergyRegion.GKEnergyLoop
GKEnergyRegion.GKEnergyLoopQI
GKSource
GKSource.GK_MULTIPOLE_ORDER
GKSource.GK_TENSOR_MODE
GKTensorGlobal
GKTensorQI
GaussVol
GaussVol.GAUSSVOL_MODE
GeneralizedKirkwood
GeneralizedKirkwood.NonPolarModel
GeneralizedKirkwoodForce
GenerateRotamers
GetProteinFeatures
GlobalBehavior
GoldsteinPairRegion
GoldsteinPairRegion.GoldsteinRotamerPairLoop
GradientOptions
GradientOptions.GradientOptionGroup
GradientSchedule
GradientUtils
GraphicsAxis
GraphicsCanvas
GraphicsEvents
GraphicsFullScreen
GraphicsPanel
GraphicsPicking
GraphicsPicking.PickLevel
GraphicsPrefs
GraphicsSplitPane
GuidedIntegerSchedule
GuidedLongSchedule
HKL
HarmonicBondForce
HeadlessMain
Hex
Hierarchy
HilbertCurveTransforms
HistogramData
HistogramXmlAdapter
HttpRequest
HttpResponse
HttpResponse.Status
HttpServer
HttpServer.AcceptorThread
Hybrid36
HybridTeam
HydrophobicPMFLoop
HydrophobicPMFRegion
HydrophobicPMFRegion.CarbonSASALoop
IFFTRegion
IFFTXYLoop
IFFTZLoop
INTFileFilter
INTFilter
IORequest
IORequestList
ImproperTorsion
ImproperTorsionForce
ImproperTorsionType
InPlaneAngleForce
IndexIndexPair
InducedDipoleFieldReduceRegion
InducedDipoleFieldReduceRegion.InducedDipoleFieldReduceLoop
InducedDipoleFieldRegion
InducedDipoleFieldRegion.InducedDipoleRealSpaceFieldRegion
InducedDipoleFieldRegion.InducedDipoleRealSpaceFieldRegion.InducedRealSpaceFieldLoop
InducedDipoleFieldRegion.InducedDipoleRealSpaceFieldSection
InducedDipoleFieldRegion.InducedDipoleReciprocalFieldSection
InducedFileFilter
InducedFilter
InducedGKFieldRegion
InducedGKFieldRegion.InducedGKFieldLoop
InitializationRegion
InitializationRegion
InitializationRegion.InitializationLoop
InitializationRegion.InitializationLoop
InitializationRegion.RotateMultipolesLoop
Instance
IntArray
IntSet
IntegerArrayBuf
IntegerArrayBuf_1
IntegerArrayReductionBuf
IntegerArrayReductionBuf_1
IntegerBuf
IntegerForLoop
IntegerItemBuf
IntegerItemReductionBuf
IntegerMatrixBuf
IntegerMatrixBuf_1
IntegerMatrixReductionBuf
IntegerMatrixReductionBuf_1
IntegerOp
IntegerSchedule
IntegerStrideForLoop
Integrate1DNumeric
Integrate1DNumeric.IntegrateWindow
Integrate1DNumeric.IntegrationSide
Integrate1DNumeric.IntegrationType
Integration
Integrator
Integrator
IntegratorEnum
InvalidMatrixFileException
ItemGenerator
ItemHolder
IteratorItemGenerator
Job
JobBackend
JobBackend.State
JobBackendMessage
JobBackendMessage.CancelJobMessage
JobBackendMessage.CommenceJobMessage
JobBackendMessage.InputFileCloseResultMessage
JobBackendMessage.InputFileOpenResultMessage
JobBackendMessage.InputFileReadResultMessage
JobBackendMessage.InputFileSkipResultMessage
JobBackendMessage.JobFinishedMessage
JobBackendMessage.OutputFileCloseResultMessage
JobBackendMessage.OutputFileFlushResultMessage
JobBackendMessage.OutputFileOpenResultMessage
JobBackendMessage.OutputFileWriteResultMessage
JobBackendMessage.RenewLeaseMessage
JobBackendMessage.ReportResourceMessage
JobBackendProxy
JobBackendRef
JobFrontend
JobFrontend.State
JobFrontendMessage
JobFrontendMessage.AssignBackendMessage
JobFrontendMessage.AssignJobNumberMessage
JobFrontendMessage.BackendFinishedMessage
JobFrontendMessage.BackendReadyMessage
JobFrontendMessage.CancelJobMessage
JobFrontendMessage.InputFileCloseMessage
JobFrontendMessage.InputFileOpenMessage
JobFrontendMessage.InputFileReadMessage
JobFrontendMessage.InputFileSkipMessage
JobFrontendMessage.OutputFileCloseMessage
JobFrontendMessage.OutputFileFlushMessage
JobFrontendMessage.OutputFileOpenMessage
JobFrontendMessage.OutputFileWriteMessage
JobFrontendMessage.RenewLeaseMessage
JobFrontendMessage.ReportCommentMessage
JobFrontendMessage.RequestResourceMessage
JobFrontendProxy
JobFrontendRef
JobGenerator
JobInfo
JobInfo.State
JobScheduler
JobSchedulerException
JobSchedulerMessage
JobSchedulerMessage.BackendFailedMessage
JobSchedulerMessage.CancelJobMessage
JobSchedulerMessage.JobFinishedMessage
JobSchedulerMessage.RenewLeaseMessage
JobSchedulerMessage.ReportCommentMessage
JobSchedulerMessage.RequestJobMessage
JobSchedulerProxy
JobSchedulerRef
Joint
KeyFileEditor
KeyFileFilter
KeyFilter
Keyword
KeywordComponent
KeywordComponent.SwingRepresentation
KeywordPanel
KillRegion
LBFGS
LambdaData
LambdaInterface
LambdaMode
LambdaMove
LambdaParticleOptions
LambdaParticleOptions.LambdaParticleOptionGroup
LangevinIntegrator
LatticeSystem
LaueSystem
LineBufferedOutputStream
LineSearch
LineSearchResult
LinearAnnealSchedule
LinearDerivativeSwitch
Lock
Lock.Synchronizer
LogFormatter
LogHandler
Logger
LongArrayBuf
LongArrayBuf_1
LongArrayReductionBuf
LongArrayReductionBuf_1
LongBuf
LongForLoop
LongItemBuf
LongItemReductionBuf
LongMatrixBuf
LongMatrixBuf_1
LongMatrixReductionBuf
LongMatrixReductionBuf_1
LongOp
LongRange
LongSchedule
LongStrideForLoop
Loop
LoopClosure
LoopbackChannel
MBARFilter
MCLoop
MCMove
MDEngine
MDMove
MDVerbosity
MDWriteAction
MPObjectInputStream
MSNode
MSRoot
MTZFileFilter
MTZFilter
MTZWriter
MTZWriter.MTZType
Main
MainMenu
MainPanel
ManyBodyCell
ManyBodyOptions
ManyBodyOptions.BoxOptionGroup
ManyBodyOptions.EnergyOptionGroup
ManyBodyOptions.ManyBodyOptionGroup
ManyBodyOptions.ResidueOptionGroup
ManyBodyOptions.WindowOptionGroup
MaskingInterface
Mathe
MatrixMath
Mcg1Random
MergeFilter
Message
MetropolisMC
Minimize
Minimize.MinimizationEngine
MinimizeOpenMM
MinimizeOptions
MinimizeOptions.MinimizeOptionGroup
ModelingPanel
ModelingPanel.FFXLauncher
ModelingShell
ModifiedBessel
MolecularAssembly
MolecularAssembly.FractionalMode
MolecularDynamics
MolecularDynamicsOpenMM
MolecularMC
Molecule
MonteCarloBarostat
MonteCarloListener
MonteCarloOST
MouseBehavior
MouseBehaviorCallback
MouseOrbit
MouseProperties
MouseRotate
MouseSelection
MouseTranslate
MouseZoom
MultiDoubleArray
MultiDynamicsOptions
MultiDynamicsOptions.MultiDynamicsOptionGroup
MultiResidue
MultipleParallelException
MultiplicativeSwitch
MultipoleForce
MultipoleTensor
MultipoleType
MultistateBennettAcceptanceRatio
MultistateBennettAcceptanceRatio.HarmonicOscillatorsTestCase
MultistateBennettAcceptanceRatio.SeedType
NCSCrystal
NCSRestraint
NamingUtils
NamingUtils.HetAtoms
NeckIntegral
NeighborList
NetworkChannel
NetworkChannelReceiveThread
NetworkChannelSendThread
NeutronFormFactor
NonPjJobFrontend
NonPjJobFrontend.State
NonbondedCutoff
NonbondedForce
NucleicAcidUtils
NucleicAcidUtils.NA
NucleicAcidUtils.NucleicAcid1
NucleicAcidUtils.NucleicAcid3
OPTRegion
OPTRegion.OPTLoop
OSTOptions
OSTOptions.MCOSTOptionGroup
OSXAdapter
ObjectArrayBuf
ObjectArrayBuf_1
ObjectArrayReductionBuf
ObjectArrayReductionBuf_1
ObjectBuf
ObjectItemBuf
ObjectItemReductionBuf
ObjectMatrixBuf
ObjectMatrixBuf_1
ObjectMatrixReductionBuf
ObjectMatrixReductionBuf_1
ObjectOp
ObjectPair
Octree
OctreeCell
OctreeParticle
OctreePoint
Op
OpenMMContext
OpenMMEnergy
OpenMMIntegrator
OpenMMState
OpenMMSystem
OptimizationInterface
OptimizationListener
OrthogonalSpaceTempering
OutOfPlaneBend
OutOfPlaneBendForce
OutOfPlaneBendType
PCGSolver
PCGSolver.InitConjugateRegion
PCGSolver.InitConjugateRegion.InitConjugateLoop
PCGSolver.InitResidualRegion
PCGSolver.InitResidualRegion.InitResidualLoop
PCGSolver.PRECONDITION_MODE
PCGSolver.PreconditionerRegion
PCGSolver.PreconditionerRegion.InducedPreconditionerFieldLoop
PCGSolver.UpdateConjugateRegion
PCGSolver.UpdateConjugateRegion.UpdateConjugateLoop
PCGSolver.UpdateConjugateRegion.UpdatePreconditionerLoop
PCGSolver.UpdateResidualRegion
PCGSolver.UpdateResidualRegion.UpdateApLoop
PCGSolver.UpdateResidualRegion.UpdateResidualAndInducedLoop
PDBFileFilter
PDBFilter
PDBMLFileFilter
PDBMLFilter
PJDoubleArray
PJProperties
PMETimings
Packing
PairwiseSchedule
ParallelConstruct
ParallelFFT
ParallelFFT.FFTXYLoop
ParallelForLoop
ParallelIteration
ParallelRegion
ParallelSection
ParallelTeam
ParallelTeamThread
ParallelTeamThread_0
ParticleMeshEwald
PeriodicTorsionForce
PermanentFieldRegion
PermanentFieldRegion.PermanentRealSpaceFieldRegion
PermanentFieldRegion.PermanentRealSpaceFieldRegion.InitializationLoop
PermanentFieldRegion.PermanentRealSpaceFieldRegion.PermanentRealSpaceFieldLoop
PermanentFieldRegion.PermanentRealSpaceFieldSection
PermanentFieldRegion.PermanentReciprocalSection
PermanentGKFieldRegion
PermanentGKFieldRegion.PermanentGKFieldLoop
PhMinimize
PhReplicaExchange
PiOrbitalTorsion
PiOrbitalTorsionForce
PiOrbitalTorsionType
PickMouseBehavior
PickOrbitBehavior
PickPropertiesBehavior
PickRotateBehavior
PickSelectionBehavior
PickTranslateBehavior
PickZoomBehavior
PickingCallback
Platform
Platform
PolarizableMultipole
Polarization
PolarizationEnergyRegion
PolarizationEnergyRegion.PolarizationEnergyLoop
PolarizeType
Polymer
PolymerUtils
PolynomialCurve
PortUtils
Potential
Potential.STATE
Potential.VARIABLE_TYPE
PotentialCommand
PotentialScript
PotentialTest
PotentialsFileOpener
PotentialsFunctions
PotentialsUtils
PowerSwitch
PrintStreamLogger
ProcessInfo
ProcessInfo.State
ProgressiveAlignmentOfCrystals
PropertyGroup
Proxy
QIFrame
QuadTopologyEnergy
QuasiLinearThetaMap
ROLS
ROLSP
Random
RandomSample
RandomSubset
RandomSubset.DenseHelper
RandomSubset.Helper
RandomSubset.SparseHelper
RandomUnitCellOptions
RandomUnitCellOptions.RandomUnitCellOptionGroup
Range
Rattle
Real
Real3D
Real3DParallel
RealSpaceData
RealSpaceEnergy
RealSpaceEnergyRegion
RealSpaceEnergyRegion.FixedChargeEnergyLoop
RealSpaceFile
RealSpaceFileFilter
RealSpaceNeighborParameters
RealSpaceOptions
RealSpaceRefinementData
ReciprocalEnergyRegion
ReciprocalEnergyRegion.InducedDipoleReciprocalEnergyLoop
ReciprocalEnergyRegion.PermanentReciprocalEnergyLoop
ReciprocalSpace
ReduceArrays
ReduceRegion
ReduceRegion.ReduceLoop
ReduceRegion.TorqueLoop
RefinementEnergy
RefinementMinimize
RefinementMinimize.RefinementMode
RefinementModel
ReflectionList
ReflectionSpline
RelativeSolvation
RelativeSolvation.SolvationLibrary
RelativeSolvationType
Renderer
RendererCache
RendererCache.ColorModel
RendererCache.ViewModel
RepExOST
RepExOST.OstType
RepExOptions
RepExOptions.RepExOptionGroup
RepexOSTOptions
ReplicaExchange
ReplicatedBoolean
ReplicatedBoolean.Receiver
ReplicatedByte
ReplicatedByte.Receiver
ReplicatedCharacter
ReplicatedCharacter.Receiver
ReplicatedDouble
ReplicatedDouble.Receiver
ReplicatedFloat
ReplicatedFloat.Receiver
ReplicatedInteger
ReplicatedInteger.Receiver
ReplicatedLong
ReplicatedLong.Receiver
ReplicatedObject
ReplicatedObject.Receiver
ReplicatedShort
ReplicatedShort.Receiver
ReplicatesCrystal
Residue
ResidueState
Resolution
ResourceCache
ResourceCache.ResourceInfo
Resources
Respa
RestrainBondsForce
RestrainDistance
RestrainGroups
RestrainGroupsForce
RestrainPosition
RestrainPositionsForce
RestrainTorsionsForce
RestraintTorsion
RosenbluthCBMC
RosenbluthChi0Move
RosenbluthChiAllMove
RosenbluthOBMC
Rotamer
RotamerLibrary
RotamerLibrary.NonstandardRotLibrary
RotamerLibrary.NucleicAcidLibrary
RotamerLibrary.NucleicSugarPucker
RotamerLibrary.ProteinLibrary
RotamerLibrary.RotamerGuess
RotamerMatrixMC
RotamerMatrixMove
RotamerOptimization
RotamerOptimization.Algorithm
RotamerOptimization.BoxOptimization
RotamerOptimization.Direction
RotamerOptimization.DistanceMethod
RowLoop
RowRegion
RowRegion.GridInitLoop
RowSchedule
Runner
RunningStatistics
SCFAlgorithm
SCFPredictor
SCFPredictorParameters
SCFPredictorParameters.LeastSquaresPredictor
SORRegion
SORRegion.SORLoop
SSETest
SaveOptions
ScalarMath
ScaleBulkEnergy
ScaleBulkEnergy.ScaleBulkEnergyRegion
ScaleBulkEnergy.ScaleBulkEnergyRegion.ScaleBulkEnergyLoop
ScaleBulkMinimize
ScaleParameters
ScfPredictor
ScfPredictor.LeastSquaresPredictor
ScfPredictor.PredictorMode
Schedule
Searching
Searching.Byte
Searching.Character
Searching.Double
Searching.Float
Searching.Integer
Searching.Long
Searching.Object
Searching.Short
Selection
SelfEnergyRegion
SelfEnergyRegion.SelfEnergyLoop
SendAsynchronous
SendSynchronous
SequentialEstimator
SettleConstraint
ShakeChargeConstraint
SharedBoolean
SharedBooleanArray
SharedBooleanArrayBuf
SharedBooleanArrayBuf_1
SharedBooleanArrayReductionBuf
SharedBooleanArrayReductionBuf_1
SharedBooleanBuf
SharedBooleanReductionBuf
SharedByte
SharedByteArray
SharedByteArrayBuf
SharedByteArrayBuf_1
SharedByteArrayReductionBuf
SharedByteArrayReductionBuf_1
SharedByteBuf
SharedByteReductionBuf
SharedCharacter
SharedCharacterArray
SharedCharacterArrayBuf
SharedCharacterArrayBuf_1
SharedCharacterArrayReductionBuf
SharedCharacterArrayReductionBuf_1
SharedCharacterBuf
SharedCharacterReductionBuf
SharedDouble
SharedDoubleArray
SharedDoubleArrayBuf
SharedDoubleArrayBuf_1
SharedDoubleArrayReductionBuf
SharedDoubleArrayReductionBuf_1
SharedDoubleBuf
SharedDoubleReductionBuf
SharedFloat
SharedFloatArray
SharedFloatArrayBuf
SharedFloatArrayBuf_1
SharedFloatArrayReductionBuf
SharedFloatArrayReductionBuf_1
SharedFloatBuf
SharedFloatReductionBuf
SharedInteger
SharedIntegerArray
SharedIntegerArrayBuf
SharedIntegerArrayBuf_1
SharedIntegerArrayReductionBuf
SharedIntegerArrayReductionBuf_1
SharedIntegerBuf
SharedIntegerMatrix
SharedIntegerReductionBuf
SharedLong
SharedLongArray
SharedLongArrayBuf
SharedLongArrayBuf_1
SharedLongArrayReductionBuf
SharedLongArrayReductionBuf_1
SharedLongBuf
SharedLongMatrix
SharedLongReductionBuf
SharedObject
SharedObjectArray
SharedObjectArrayBuf
SharedObjectArrayBuf_1
SharedObjectArrayReductionBuf
SharedObjectArrayReductionBuf_1
SharedObjectBuf
SharedObjectReductionBuf
SharedShort
SharedShortArray
SharedShortArrayBuf
SharedShortArrayBuf_1
SharedShortArrayReductionBuf
SharedShortArrayReductionBuf_1
SharedShortBuf
SharedShortReductionBuf
SharedSigned16BitIntegerArrayBuf
SharedSigned16BitIntegerArrayBuf_1
SharedSigned16BitIntegerArrayReductionBuf
SharedSigned16BitIntegerArrayReductionBuf_1
SharedSigned16BitIntegerBuf
SharedSigned16BitIntegerReductionBuf
SharedSigned8BitIntegerArrayBuf
SharedSigned8BitIntegerArrayBuf_1
SharedSigned8BitIntegerArrayReductionBuf
SharedSigned8BitIntegerArrayReductionBuf_1
SharedSigned8BitIntegerBuf
SharedSigned8BitIntegerReductionBuf
SharedUnsigned16BitIntegerArrayBuf
SharedUnsigned16BitIntegerArrayBuf_1
SharedUnsigned16BitIntegerArrayReductionBuf
SharedUnsigned16BitIntegerArrayReductionBuf_1
SharedUnsigned16BitIntegerBuf
SharedUnsigned16BitIntegerReductionBuf
SharedUnsigned8BitIntegerArrayBuf
SharedUnsigned8BitIntegerArrayBuf_1
SharedUnsigned8BitIntegerArrayReductionBuf
SharedUnsigned8BitIntegerArrayReductionBuf_1
SharedUnsigned8BitIntegerBuf
SharedUnsigned8BitIntegerReductionBuf
ShortArrayBuf
ShortArrayBuf_1
ShortArrayReductionBuf
ShortArrayReductionBuf_1
ShortBuf
ShortItemBuf
ShortItemReductionBuf
ShortMatrixBuf
ShortMatrixBuf_1
ShortMatrixReductionBuf
ShortMatrixReductionBuf_1
ShortOp
SigmaAEnergy
SigmaAMinimize
Signed16BitIntegerArrayBuf
Signed16BitIntegerArrayBuf_1
Signed16BitIntegerArrayReductionBuf
Signed16BitIntegerArrayReductionBuf_1
Signed16BitIntegerBuf
Signed16BitIntegerItemBuf
Signed16BitIntegerItemReductionBuf
Signed16BitIntegerMatrixBuf
Signed16BitIntegerMatrixBuf_1
Signed16BitIntegerMatrixReductionBuf
Signed16BitIntegerMatrixReductionBuf_1
Signed8BitIntegerArrayBuf
Signed8BitIntegerArrayBuf_1
Signed8BitIntegerArrayReductionBuf
Signed8BitIntegerArrayReductionBuf_1
Signed8BitIntegerBuf
Signed8BitIntegerItemBuf
Signed8BitIntegerItemReductionBuf
Signed8BitIntegerMatrixBuf
Signed8BitIntegerMatrixBuf_1
Signed8BitIntegerMatrixReductionBuf
Signed8BitIntegerMatrixReductionBuf_1
SimulatedAnnealing
SimulatedAnnealing.ScheduleConstructor
SimulatedAnnealing.Schedules
SimulationDefinition
SimulationFilter
SimulationLoader
SimulationMessage
SimulationUpdate
SinWave
SliceLoop
SliceRegion
SliceRegion.GridInitLoop
SliceSchedule
SoluteType
SoluteType.SOLUTE_RADII_TYPE
SolventBinaryFormFactor
SolventGaussFormFactor
SolventPolyFormFactor
Sorting
Sorting.Byte
Sorting.Character
Sorting.Double
Sorting.Float
Sorting.Integer
Sorting.Long
Sorting.Object
Sorting.Short
SpaceGroup
SpaceGroupConversions
SpaceGroupDefinitions
SpaceGroupInfo
SpatialDensityLoop
SpatialDensityRegion
SpatialDensitySchedule
Spinner
SplineEnergy
SplineEnergy.Type
SplineMinimize
SquareRoot
SquaredTrigSwitch
State
StatisticalEstimator
Status
Stderr
Stdin
Stdio
Stdout
Stochastic
StreamFile
StretchBend
StretchBendForce
StretchBendType
StretchTorsion
StretchTorsionForce
StretchTorsionType
StringArray
StringOutputStream
StringUtils
StructureMetrics
SturmMethod
SummaryStatistics
Superpose
SurfaceAreaLoop
SurfaceAreaRegion
SurfaceAreaRegion.IndexedDouble
SurfaceAreaRegion.InitLoop
SwingWorker
SwingWorker.ThreadVar
SymOp
System
SystemFilter
SystemState
Terminatable
ThermodynamicsOptions
ThermodynamicsOptions.ThermodynamicsAlgorithm
ThermodynamicsOptions.ThermodynamicsOptionGroup
Thermostat
ThermostatEnum
TholeTensorGlobal
TholeTensorQI
ThreeBodyEnergyRegion
ThreeBodyEnergyRegion.ThreeBodyEnergyLoop
Timer
TimerOptions
TimerOptions.TimerOptionGroup
TimerTask
TimerThread
TimerThread.TimeoutInfo
TinkerUtils
TitrationManyBody
TitrationUtils
TitrationUtils.Titration
TopologyOptions
TopologyOptions.TopologyOptionGroup
TornadoDFT
Torque
Torsion
TorsionForce
TorsionSearch
TorsionSearch.StateContainer
TorsionTorsion
TorsionTorsionForce
TorsionTorsionType
TorsionType
TorsionType.TorsionMode
Trajectory
TriCubicSpline
TwoBodyEnergyRegion
TwoBodyEnergyRegion.TwoBodyEnergyLoop
UIFileCloser
UIFileOpener
UIUtils
UniformBSpline
UnivariateDiffFunction
UnivariateFunctionFactory
UnivariateSwitchingFunction
UnmodifiableState
Unsigned16BitIntegerArrayBuf
Unsigned16BitIntegerArrayBuf_1
Unsigned16BitIntegerArrayReductionBuf
Unsigned16BitIntegerArrayReductionBuf_1
Unsigned16BitIntegerBuf
Unsigned16BitIntegerItemBuf
Unsigned16BitIntegerItemReductionBuf
Unsigned16BitIntegerMatrixBuf
Unsigned16BitIntegerMatrixBuf_1
Unsigned16BitIntegerMatrixReductionBuf
Unsigned16BitIntegerMatrixReductionBuf_1
Unsigned8BitIntegerArrayBuf
Unsigned8BitIntegerArrayBuf_1
Unsigned8BitIntegerArrayReductionBuf
Unsigned8BitIntegerArrayReductionBuf_1
Unsigned8BitIntegerBuf
Unsigned8BitIntegerItemBuf
Unsigned8BitIntegerItemReductionBuf
Unsigned8BitIntegerMatrixBuf
Unsigned8BitIntegerMatrixBuf_1
Unsigned8BitIntegerMatrixReductionBuf
Unsigned8BitIntegerMatrixReductionBuf_1
UreyBradley
UreyBradleyForce
UreyBradleyType
Utilities
Utilities.FileType
Utilities.PolymerType
VDWPairType
VDWType
VDWType.VDWMode
VanDerWaals
VanDerWaalsForm
VanDerWaalsTornado
VdwForce
Vec3Array
VelocityVerlet
VerletIntegrator
Version
WcaDispersionForce
WorkerConstruct
WorkerForLoop
WorkerIntegerForLoop
WorkerIntegerStrideForLoop
WorkerIteration
WorkerLongForLoop
WorkerLongStrideForLoop
WorkerRegion
WorkerTeam
WorkerTeamThread
WriteoutOptions
XPHFileFilter
XPHFilter
XRayEnergy
XRayFormFactor
XYZFileFilter
XYZFilter
XrayOptions
XrayOptions.BulkSolventGroup
XtalEnergy
Zwanzig
Zwanzig.Directionality