- abort()
: BALL::DockingAlgorithm
, BALL::TCPTransfer
, BALL::VIEW::FetchHTMLThread
, BALL::VIEW::DownloadPDBFile
- abortClicked()
: BALL::VIEW::DockProgressDialog
- abortScript()
: BALL::VIEW::PyWidget
- abortTest()
: BALL::VIEW::TestFramework
- about()
: BALL::Mainframe
- aboutToExit()
: BALL::VIEW::MainControl
- accept()
: BALL::VIEW::EditSingleShortcut
, BALL::VIEW::ExportGeometryDialog
, BALL::VIEW::FieldLinesDialog
, BALL::VIEW::GeometricFitDialog
, BALL::VIEW::AmberConfigurationDialog
, BALL::VIEW::GridVisualizationDialog
, BALL::VIEW::LabelDialog
, BALL::VIEW::AssignBondOrderConfigurationDialog
, BALL::VIEW::MinimizationDialog
, BALL::VIEW::MMFF94ConfigurationDialog
, BALL::VIEW::AtomOverview
, BALL::VIEW::MolecularDynamicsDialog
, BALL::VIEW::RaytraceableContourSurfaceDialog
, BALL::VIEW::CharmmConfigurationDialog
, BALL::VIEW::RunGAMESSDialog
, BALL::VIEW::ClippingDialog
, BALL::VIEW::CompositeProperties
- acidicColorPressed()
: BALL::VIEW::ColoringSettingsDialog
- activate()
: BALL::BALLPlugin
, BALL::TCPServer
, BALL::VIEW::ServerWidget
- activate_async()
: BALL::TCPServerThread
- activatedItem_()
: BALL::VIEW::MolecularControl
- activatedOrderItem_()
: BALL::VIEW::EditableScene
- add()
: BALL::ConformationSet
, BALL::SmartsMatcher::RecStruct_
, BALL::VIEW::RaytraceableContourSurfaceDialog
- addAlgorithm()
: BALL::VIEW::DockDialog
- addAllRecords_()
: BALL::PDBFile
- addAminoAcid()
: BALL::Peptides::PeptideBuilder
- addAtom()
: BALL::VIEW::AtomDistanceColorProcessor
- AddBackboneModel()
: BALL::VIEW::AddBackboneModel
- AddBallAndStickModel()
: BALL::VIEW::AddBallAndStickModel
- addBasisOption()
: BALL::GAMESSLogFile
- AddCartoonModel()
: BALL::VIEW::AddCartoonModel
- addCESelementConnectionPredicate()
: BALL::GAFFCESParser::CESPredicate
- addCESelementPredicate()
: BALL::GAFFCESParser::CESPredicate
- addCESwildcardsConnectionPredicate()
: BALL::GAFFCESParser::CESPredicate
- addCESwildcardsPredicate()
: BALL::GAFFCESParser::CESPredicate
- addChild()
: BALL::ConnectedToPredicate::CTPNode
- addCoefficient()
: BALL::GAMESSLogFile
- addComponent()
: BALL::ComposedEnergyProcessor
- addComposite()
: BALL::VIEW::MolecularControl
- addComposite_()
: BALL::VIEW::MolecularStructure
- addDataPath()
: BALL::Path
- AddDV3_()
: BALL::MMFF94OutOfPlaneBend
, BALL::MMFF94StretchBend
, BALL::MMFF94Torsion
- addEdge()
: BALL::SmartsParser
- addEditOperation()
: BALL::VIEW::EditOperationDialog
- addEmptyRow()
: BALL::VIEW::HotkeyTable
- addGlWindow()
: BALL::VIEW::Scene
- addHydrogen_()
: BALL::AddHydrogenProcessor
- AddHydrogenProcessor()
: BALL::AddHydrogenProcessor
- addHydrogens()
: BALL::VIEW::MolecularStructure
- addItem_()
: BALL::VIEW::GeometricControl
- Addition()
: BALL::Addition< First, Second, DataType >
- AdditionalAtomInfo()
: BALL::PDB::AdditionalAtomInfo
- addLightPressed()
: BALL::VIEW::LightSettings
- addLightSource()
: BALL::VIEW::Stage
- AddLineModel()
: BALL::VIEW::AddLineModel
- addMissingHydrogens()
: BALL::SmilesParser
- addModel_()
: BALL::VIEW::RaytraceableContourSurfaceDialog
- addModularWidget()
: BALL::VIEW::MainControl
- addMovable_()
: BALL::ResidueRotamerSet
- addNeededObjects_()
: BALL::PersistenceManager
- addNewAND()
: BALL::GAFFCESParser::CESPredicate
- addNewFragment_()
: BALL::FragmentDB
- addNewOR()
: BALL::GAFFCESParser::CESPredicate
- addNode()
: BALL::SmartsParser
- addPluginDirectory()
: BALL::PluginManager
, BALL::VIEW::PluginDialog
- addPointerPair_()
: BALL::PersistenceManager
- addPropertiesFromSPAtom()
: BALL::SmartsParser::SPAtom
- addRecursiveEdge()
: BALL::SmartsParser
- addRepresentation()
: BALL::VIEW::GeometricControl
- addRingConnection()
: BALL::SmartsParser
- addRotamer()
: BALL::ResidueRotamerSet
, BALL::RotamerLibrary
- addRow()
: BALL::VIEW::GenericControl
- addScoring()
: BALL::DockResult
- addScoringFunction()
: BALL::VIEW::DockDialog
, BALL::VIEW::DockResultDialog
- addSolutionToStructures()
: BALL::VIEW::AssignBondOrderResultsDialog
- addSolvent()
: BALL::PeriodicBoundary
- addSPEdge()
: BALL::SmartsParser::SPNode
- addSphere_s_()
: BALL::BindingPocketProcessor
- addStructure()
: BALL::VIEW::EditableScene
- addStructure_()
: BALL::VIEW::EditableScene
- AddSurfaceModel()
: BALL::VIEW::AddSurfaceModel
- addTag()
: BALL::VIEW::LabelDialog
- addToolBarEntries()
: BALL::VIEW::ModularWidget
, BALL::VIEW::EditableScene
, BALL::VIEW::Scene
- addTriangles_()
: BALL::TContourSurface< T >
- addTruePredicate()
: BALL::GAFFCESParser::CESPredicate
- AddVanDerWaalsModel()
: BALL::VIEW::AddVanDerWaalsModel
- addVariants()
: BALL::Enumerator< Container, SiteIterator, Variant >
- advancedClicked()
: BALL::VIEW::DockResultDialog
- advancedOptions()
: BALL::VIEW::MinimizationDialog
, BALL::VIEW::MolecularDynamicsDialog
- after()
: BALL::String
- ala_pressed()
: BALL::VIEW::PeptideDialog
- algAdvancedPressed()
: BALL::VIEW::DockDialog
- algorithmChosen()
: BALL::VIEW::DockDialog
- alreadySeenThisAtom()
: BALL::GAFFCESParser::CESPredicate
- AmberBend()
: BALL::AmberBend
- AmberConfigurationDialog()
: BALL::VIEW::AmberConfigurationDialog
- AmberEvaluation()
: BALL::AmberEvaluation
- AmberFF()
: BALL::AmberFF
- AmberNonBonded()
: BALL::AmberNonBonded
- AmberStretch()
: BALL::AmberStretch
- AmberTorsion()
: BALL::AmberTorsion
- ambientFactorChanged()
: BALL::VIEW::MaterialSettings
- AminoAcidDescriptor()
: BALL::Peptides::AminoAcidDescriptor
- analyseRings()
: BALL::RingAnalyser
- analyticallyIntegrateInterval()
: BALL::Pair6_12RDFIntegrator
- AncestorIteratorTraits()
: BALL::Composite::AncestorIteratorTraits
- angle_changed()
: BALL::VIEW::PeptideDialog
- animate_()
: BALL::VIEW::Scene
- animateClicked()
: BALL::VIEW::SnapshotVisualisationDialog
- animationSpeedChanged()
: BALL::VIEW::SnapshotVisualisationDialog
- AnimationThread()
: BALL::VIEW::AnimationThread
- AnisotropyShiftProcessor()
: BALL::AnisotropyShiftProcessor
- annotateAliphaticAndAromaticRingAtoms_()
: BALL::GAFFTypeProcessor
- annotateBondTypes_()
: BALL::GAFFTypeProcessor
- annotatePlanarRingAtoms_()
: BALL::GAFFTypeProcessor
- annotateRingSizes_()
: BALL::GAFFTypeProcessor
- append()
: BALL::DCDFile
, BALL::TrajectoryFile
, BALL::TRRFile
, BALL::AtomContainer
, BALL::Chain
, BALL::Molecule
, BALL::Nucleotide
, BALL::Residue
, BALL::SecondaryStructure
, BALL::System
- appendChild()
: BALL::Composite
, BALL::ExpressionTree
- appendHotkey()
: BALL::VIEW::HotkeyTable
- appendLine()
: BALL::INIFile
- appendSection()
: BALL::INIFile
- appendText()
: BALL::VIEW::PyWidget
- appendText_()
: BALL::VIEW::PyWidget
- appendToHistory_()
: BALL::VIEW::PyWidget
- apply()
: BALL::HashGridBox3< Item >
, BALL::PTE_
, BALL::List< Value >
, BALL::Composite
, BALL::TContour< T >
, BALL::HashGridBox3< Item >
, BALL::HashGrid3< Item >
, BALL::HashSet< Key >
, BALL::INIFile
, BALL::ResourceEntry
, BALL::ResourceFile
, BALL::ElectrostaticPotentialCalculator
, BALL::AssignBondOrderProcessor
, BALL::VIEW::DisplayProperties
, BALL::VIEW::LightSettings
, BALL::VIEW::MaterialSettings
, BALL::VIEW::StageSettings
, BALL::VIEW::StereoSettingsDialog
- apply_()
: BALL::AssignBondOrderProcessor
- applyAncestor()
: BALL::Composite
- applyBonds()
: BALL::Atom
- applyChild()
: BALL::Composite
- applyChildNostart_()
: BALL::Composite
- applyChildren()
: BALL::ResourceEntry
, BALL::ResourceFile
- applyColoringSettings_()
: BALL::VIEW::DisplayProperties
- applyDescendant()
: BALL::Composite
- applyDescendantPostorder()
: BALL::Composite
- applyDescendantPostorderNostart_()
: BALL::Composite
- applyDescendantPreorder()
: BALL::Composite
- applyDescendantPreorderNostart_()
: BALL::Composite
- applyFirstSnapShot()
: BALL::SnapShotManager
- applyForceFieldSettings_()
: BALL::VIEW::MolecularStructure
- applyInterBond()
: BALL::AtomContainer
- applyIntraBond()
: BALL::AtomContainer
- applyLastSnapShot()
: BALL::SnapShotManager
- applyLevel()
: BALL::Composite
- applyLevelNostart_()
: BALL::Composite
- applyModelSettings_()
: BALL::VIEW::DisplayProperties
- applyNextSnapShot()
: BALL::SnapShotManager
- applyNostart_()
: BALL::ResourceEntry
- applyPostorder()
: BALL::Composite
- applyPreferences()
: BALL::VIEW::DisplayProperties
, BALL::VIEW::Preferences
, BALL::VIEW::MainControl
, BALL::VIEW::ModularWidget
, BALL::VIEW::ServerWidget
, BALL::VIEW::EditableScene
, BALL::VIEW::PyWidget
, BALL::VIEW::Scene
- applyPreferencesClicked_()
: BALL::VIEW::MainControl
- applyPreorder()
: BALL::Composite
- applyPreorderNostart_()
: BALL::Composite
- applyPressed()
: BALL::VIEW::ModifyRepresentationDialog
- ApplyProcessor()
: BALL::VIEW::AtomOverview::ApplyProcessor
- applyProcessors_()
: BALL::VIEW::DockDialog
, BALL::VIEW::FDPBDialog
- applySelector()
: BALL::VIEW::MolecularControl
- applySettings()
: BALL::VIEW::NetworkPreferences
- applySettingsTo()
: BALL::VIEW::ColoringSettingsDialog
, BALL::VIEW::ModelSettingsDialog
- applySnapShot()
: BALL::SnapShot
, BALL::SnapShotManager
- applySolution_()
: BALL::Kekuliser
- applySplit()
: BALL::VIEW::ModifyRepresentationDialog
- applyTo()
: BALL::VIEW::AmberConfigurationDialog
, BALL::VIEW::MMFF94ConfigurationDialog
, BALL::VIEW::CharmmConfigurationDialog
- applyTo_()
: BALL::VIEW::DisplayProperties
- applyValues_()
: BALL::VIEW::DockDialog
, BALL::VIEW::FDPBDialog
- APSMatcher()
: BALL::GAFFCESParser::APSMatcher
- APSTerm()
: BALL::GAFFCESParser::APSMatcher::APSTerm
- areInOneAromaticRing()
: BALL::MMFF94
- areInOneRing()
: BALL::MMFF94
- arg_pressed()
: BALL::VIEW::PeptideDialog
- aromaticColorPressed()
: BALL::VIEW::ColoringSettingsDialog
- AromaticityProcessor()
: BALL::AromaticityProcessor
- AromaticRing()
: BALL::CHPI::AromaticRing
- AromaticRingStacking()
: BALL::AromaticRingStacking
- aromatize()
: BALL::AromaticityProcessor
- aromatizeSimple()
: BALL::AromaticityProcessor
- arrangeBonds_()
: BALL::Bond
- asn_pressed()
: BALL::VIEW::PeptideDialog
- asp_pressed()
: BALL::VIEW::PeptideDialog
- assembleChain()
: BALL::MoleculeAssembler
- assembleMolecule()
: BALL::MoleculeAssembler
- assembleRS()
: BALL::MoleculeAssembler
- assembleSubstituents()
: BALL::MoleculeAssembler
- assign()
: BALL::Templates
- assignAromaticType_5_()
: BALL::MMFF94AtomTyper
- assignAtomtype_()
: BALL::GAFFTypeProcessor
- assignBackboneAtoms()
: BALL::AtomBijection
- AssignBaseProcessor()
: BALL::AssignBaseProcessor
- AssignBondOrderConfigurationDialog()
: BALL::VIEW::AssignBondOrderConfigurationDialog
- AssignBondOrderProcessor()
: BALL::AssignBondOrderProcessor
- AssignBondOrderResultsDialog()
: BALL::VIEW::AssignBondOrderResultsDialog
- assignBondTypes_()
: BALL::MMFF94
- assignByName()
: BALL::AtomBijection
- assignCAlphaAtoms()
: BALL::AtomBijection
- AssignChargeProcessor()
: BALL::AssignChargeProcessor
- assignCharges()
: BALL::Templates
- assignFormalCharge()
: BALL::MMFF94ChargeProcessor
- assignMMFF94BondType()
: BALL::MMFF94
- assignModelType()
: BALL::VIEW::AddBackboneModel
, BALL::VIEW::AddCartoonModel
- assignNucleotideAtoms_()
: BALL::VIEW::AddCartoonModel
- assignParameters()
: BALL::MMFF94StretchParameters
, BALL::MMFF94BendParameters
, BALL::CosineTorsion
, BALL::QuadraticBondStretch
, BALL::CharmmEEF1
, BALL::LennardJones
, BALL::MMFF94StretchBendParameters
, BALL::MMFF94VDWParameters
, BALL::MMFF94PlaneParameters
, BALL::MMFF94TorsionParameters
, BALL::QuadraticImproperTorsion
, BALL::Potential1210
, BALL::QuadraticAngleBend
- assignPartialCharges_()
: BALL::MMFF94ChargeProcessor
- AssignRadiusProcessor()
: BALL::AssignRadiusProcessor
- AssignShiftProcessor()
: BALL::AssignShiftProcessor
- assignSpecificValues_()
: BALL::AtomTyper
- assignTo()
: BALL::AtomTyper
, BALL::MMFF94AtomTyper
- assignTorsion()
: BALL::ResidueTorsions
- assignTrivial()
: BALL::AtomBijection
- AssignTypeNameProcessor()
: BALL::AssignTypeNameProcessor
- assignTypeNames()
: BALL::Templates
- AssignTypeProcessor()
: BALL::AssignTypeProcessor
- at()
: BALL::PDBRecords
- Atom()
: BALL::Atom
- AtomBijection()
: BALL::AtomBijection
- AtomBondModelBaseProcessor()
: BALL::VIEW::AtomBondModelBaseProcessor
- AtomChargeColorProcessor()
: BALL::VIEW::AtomChargeColorProcessor
- AtomContainer()
: BALL::AtomContainer
- AtomContainerIteratorTraits()
: BALL::AtomContainerIteratorTraits
- AtomDistanceColorProcessor()
: BALL::VIEW::AtomDistanceColorProcessor
- AtomEntry()
: BALL::PDB::Structure::AtomEntry
- AtomicPolarizabilities()
: BALL::AtomicPolarizabilities
- AtomInformationContent()
: BALL::AtomInformationContent
- AtomIteratorTraits()
: BALL::AtomIteratorTraits
- AtomOverview()
: BALL::VIEW::AtomOverview
- atomProperties_()
: BALL::VIEW::EditableScene
, BALL::VIEW::PTEDialog
- AtomTyper()
: BALL::AtomTyper
- AtomTypes()
: BALL::AtomTypes
- AtomVector()
: BALL::AtomVector
- attachBridged()
: BALL::RSConstructor
- attachFused()
: BALL::RSConstructor
- attachSpiro()
: BALL::RSConstructor
- attachTemplate()
: BALL::RSConstructor
- AutoDeletable()
: BALL::AutoDeletable
- autoScale()
: BALL::VIEW::GridVisualizationDialog
, BALL::VIEW::ModifyRepresentationDialog
- AverageBondAngle_()
: BALL::HybridisationProcessor