Here is a list of all documented class members with links to the class documentation for each member:

- s -

• s_move : stormm::mm::LinMinReader, stormm::mm::LinMinWriter
• saltcon : stormm::energy::ImplicitSolventKit< T >, stormm::energy::SyNonbondedKit< T, T2 >, stormm::mm::ImplicitSolventKit< T >, stormm::mm::SyNonbondedKit< T, T2 >, stormm::structure::SyNonbondedKit< T, T2 >, stormm::synthesis::ImplicitSolventKit< T >, stormm::synthesis::SyNonbondedKit< T, T2 >, stormm::topology::ImplicitSolventKit< T >, stormm::trajectory::SyNonbondedKit< T, T2 >
• sampleChirality() : stormm::namelist::ConformerControls, stormm::synthesis::ConformerControls
• sampleCisTrans() : stormm::namelist::ConformerControls, stormm::synthesis::ConformerControls
• sampled_step_count : stormm::energy::ScoreCardReader, stormm::energy::ScoreCardWriter, stormm::mm::ScoreCardWriter
• scale : stormm::review::MeshParamKit, stormm::structure::MeshParamKit
• scale_bits : stormm::review::MeshParamKit, stormm::stmath::GenericRdSubstrate< T >, stormm::structure::MeshParamKit
• scale_f : stormm::review::MeshParamKit, stormm::structure::MeshParamKit
• scalings : stormm::energy::TilePlan
• scan_begin : stormm::chemistry::SelectionItem
• scan_end : stormm::chemistry::SelectionItem
• SceneControls() : stormm::namelist::SceneControls
• scope_name : stormm::docs::CppScope
• ScoreCard() : stormm::energy::ScoreCard, stormm::mm::ScoreCard, stormm::review::ScoreCard, stormm::structure::ScoreCard, stormm::synthesis::ScoreCard
• ScoreCardReader() : stormm::energy::ScoreCardReader
• ScoreCardWriter() : stormm::energy::ScoreCardWriter, stormm::mm::ScoreCardWriter
• ScreeningFactorTag() : stormm::topology::ScreeningFactorTag
• scwu_progress : stormm::energy::MMControlKit< T >, stormm::mm::MMControlKit< T >, stormm::stmath::MMControlKit< T >, stormm::trajectory::MMControlKit< T >
• sd_cycles : stormm::energy::MMControlKit< T >, stormm::mm::MMControlKit< T >, stormm::stmath::MMControlKit< T >, stormm::trajectory::MMControlKit< T >
• secondDerivative() : stormm::stmath::TricubicCell< T >, stormm::structure::TricubicCell< T >
• sectionAsString() : stormm::review::SectionContents
• SectionContents() : stormm::review::SectionContents
• SelectionItem() : stormm::chemistry::SelectionItem
• self_assign : stormm::energy::TilePlan
• self_ecorr : stormm::energy::ConvolutionKit< T >
• self_prep : stormm::energy::TilePlan
• SeMaskSynthesisReader() : stormm::energy::SeMaskSynthesisReader, stormm::synthesis::SeMaskSynthesisReader
• serial_number : stormm::card::HybridLabel, stormm::stmath::HybridLabel
• set() : stormm::review::TickCounter< T >, stormm::stmath::TickCounter< T >, stormm::synthesis::TickCounter< T >
• setAbsoluteClashDistance() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setAddedPointColor() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setAddedPointSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setAllFreeFrameReading() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setAlphaAngle() : stormm::namelist::MeshControls
• setAmplitude() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setAndersenFrequency() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setAndersenResetFrequency() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setAngleAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setAngleParameters() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setAngleRestraintAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setAtomCount() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setAtomicElementColor() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setAtomLimit() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• setAttemptCount() : stormm::stmath::ClusterManager< Tdata, Tcalc >, stormm::synthesis::ClusterManager< Tdata, Tcalc >
• setBetaAngle() : stormm::namelist::MeshControls
• setBond() : stormm::topology::AtomGraphStage
• setBondAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setBondConstraintTolerance() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setBondParameters() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setBonds() : stormm::topology::AtomGraphStage
• setBornRadiiCutoff() : stormm::namelist::SolventControls
• setBoundaries() : stormm::namelist::MeshControls
• setBoundaryCondition() : stormm::energy::LayeredPotentialMetrics, stormm::review::MeshParameters, stormm::structure::MeshParameters
• setBranchPointer() : stormm::chemistry::BondedNode
• setBufferWidth() : stormm::namelist::MeshControls
• setBullet() : stormm::review::OrderedList
• setCache() : stormm::mm::SynthesisCacheMap, stormm::review::SynthesisCacheMap, stormm::structure::SynthesisCacheMap, stormm::synthesis::SynthesisCacheMap, stormm::trajectory::SynthesisCacheMap
• setCacheConfiguration() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setCamlightPosition() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setCenterOfMassMotionPurgeFrequency() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setCentroid() : stormm::stmath::ClusterManager< Tdata, Tcalc >, stormm::synthesis::ClusterManager< Tdata, Tcalc >
• setCharge() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setChargeMeshScalingBits() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setChargeScaling() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setCharmmImproperAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setCharmmImprParameters() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setCheckpointFileKind() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setCheckpointFileName() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setCheckpointFormat() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setCheckpointProduction() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setClashDampingCycles() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setClashDistance() : stormm::structure::MeshForceField< T >
• setClashRatio() : stormm::structure::MeshForceField< T >
• setClosingBracketChar() : stormm::reporting::ProgressBar
• setCmapAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setCode() : stormm::structure::MdlMolProperty
• setCoefficient() : stormm::stmath::TricubicCell< T >, stormm::structure::TricubicCell< T >
• setCoefficientScalingBits() : stormm::review::BackgroundMesh< T >, stormm::structure::BackgroundMesh< T >
• setCombiningRule() : stormm::structure::MeshForceField< T >
• setCommandLineContent() : stormm::display::NamelistEmulator, stormm::namelist::NamelistEmulator, stormm::testing::NamelistEmulator
• setCommonPathLimit() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setCommonPathThreshold() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setConvergenceTarget() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setCoordinates() : stormm::review::MeshFoundation, stormm::structure::MeshFoundation
• setCoulombConstant() : stormm::energy::LayeredPotentialMetrics, stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setCpuRattleMethod() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setCutoff() : stormm::energy::LayeredPotentialMetrics, stormm::mm::DynamicsControls, stormm::mm::PPPMControls, stormm::namelist::DynamicsControls, stormm::namelist::PPPMControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setData() : stormm::stmath::TricubicCell< T >, stormm::structure::TricubicCell< T >
• setDefaultValue() : stormm::display::NamelistEmulator, stormm::namelist::NamelistElement, stormm::namelist::NamelistEmulator, stormm::testing::NamelistEmulator
• setDetail() : stormm::namelist::MeshControls
• setDiagnosticPrintFrequency() : stormm::mm::DynamicsControls, stormm::mm::MinimizeControls, stormm::namelist::DynamicsControls, stormm::namelist::MinimizeControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setDihedralAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setDihedralParameters() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setDihedralRestraintAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setDirectSumTolerance() : stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setDisplacements() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setDistanceRestraintAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setDoneChar() : stormm::reporting::ProgressBar
• setElec14Screening() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setElecClashDistance() : stormm::namelist::MeshControls
• setElecSoftcoreParameter() : stormm::structure::MeshForceField< T >
• setElecSoftcoreParameters() : stormm::structure::MeshForceField< T >
• setElectrostatic14Screening() : stormm::topology::AtomGraphStage
• setElectrostaticCutoff() : stormm::mm::DynamicsControls, stormm::mm::MinimizeControls, stormm::namelist::DynamicsControls, stormm::namelist::MinimizeControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setElementCount() : stormm::namelist::MeshControls
• setEnergyDecimalPlaces() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setEnergyScalingBits() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setEnsemble() : stormm::review::MeshFoundation, stormm::structure::MeshFoundation
• setEntry() : stormm::card::Ledger
• setEntryFormat() : stormm::structure::MdlMolProperty
• setEpsilon() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setEquilibrium() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setEvolutionWindow() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setEwaldCoefficient() : stormm::energy::LayeredPotentialMetrics, stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setExchangeProbability() : stormm::namelist::RemdControls
• setExponentFactor() : stormm::energy::LayeredPotentialMetrics
• setExternalDielectric() : stormm::namelist::SolventControls
• setExternalRegistryNumber() : stormm::namelist::MdlMolDataRequest, stormm::structure::MdlMolDataRequest
• setFieldBorderColor() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setFieldBorderLineWidth() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setFieldBorderStyle() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setFileRemoval() : stormm::testing::TestEnvironment
• setFinalDisplacements() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setFinalFrame() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setFinalStep() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setFinalStiffness() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setFinalStiffnesses() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setFinalTargetSite() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setFirstAtom() : stormm::structure::MdlMolBond
• setForceField() : stormm::structure::BackgroundMeshComposition< T >
• setForceScalingBits() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setForceThreshold() : stormm::review::Watcher
• setForm() : stormm::energy::LayeredPotentialMetrics
• setFormalChargePrinting() : stormm::structure::Pdb, stormm::synthesis::Pdb, stormm::trajectory::Pdb
• setFormatWidth() : stormm::review::OrderedList
• setFrameNumber() : stormm::chemistry::CoordinateFrame, stormm::diskutil::CoordinateFrame, stormm::energy::CoordinateFrame, stormm::mm::CoordinateFrame, stormm::namelist::CoordinateFrame, stormm::review::CoordinateFrame, stormm::stmath::CoordinateFrame, stormm::structure::CoordinateFrame, stormm::synthesis::CoordinateFrame, stormm::testing::CoordinateFrame, stormm::trajectory::CoordinateFrame
• setFrequencyOfSwaps() : stormm::namelist::RemdControls
• setGammaAngle() : stormm::namelist::MeshControls
• setGaussianWidth() : stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setGeneralCheckpointFileName() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setGeneralTrajectoryFileName() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setGeometricConstraints() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setGeometryConstraints() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setGlobalPosScalingBits() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setGpuEffortLevel() : stormm::namelist::NiceControls
• setHighTemperature() : stormm::namelist::RemdControls
• setImperative() : stormm::display::NamelistEmulator, stormm::namelist::NamelistElement, stormm::namelist::NamelistEmulator, stormm::testing::NamelistEmulator
• setImplicitSolventModel() : stormm::card::AtomGraphSynthesis, stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::energy::AtomGraphSynthesis, stormm::mm::AtomGraph, stormm::mm::AtomGraphSynthesis, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::namelist::SolventControls, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::review::AtomGraphSynthesis, stormm::stmath::AtomGraphSynthesis, stormm::structure::AtomGraph, stormm::structure::AtomGraphSynthesis, stormm::synthesis::AtomGraph, stormm::synthesis::AtomGraphSynthesis, stormm::testing::AtomGraph, stormm::testing::AtomGraphSynthesis, stormm::topology::AtomGraph, stormm::topology::AtomGraphSynthesis, stormm::trajectory::AtomGraph, stormm::trajectory::AtomGraphSynthesis
• setInferred14AccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setInitialDisplacements() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setInitializationMask() : stormm::synthesis::NonbondedWorkUnit
• setInitialStep() : stormm::mm::MinimizeControls, stormm::namelist::BoundedRestraint, stormm::namelist::MinimizeControls, stormm::restraints::BoundedRestraint
• setInitialStiffness() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setInitialStiffnesses() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setInitialTargetSite() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setInputCoordinateFileKind() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setInputCoordinateFileName() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setInputTranscriptFileName() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setInternalDielectric() : stormm::namelist::SolventControls
• setInternalRegistryUsage() : stormm::namelist::MdlMolDataRequest, stormm::structure::MdlMolDataRequest
• setInterpolationOrder() : stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setIntValue() : stormm::namelist::NamelistElement
• setItemName() : stormm::structure::MdlMolDataItem
• setIterations() : stormm::reporting::ProgressBar
• setLabel() : stormm::namelist::SceneControls
• setLabelGroup() : stormm::namelist::ReceptorControls
• setLangevinCollisionFrequency() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setLangevinFrequency() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setLastTimeStep() : stormm::energy::ScoreCard, stormm::mm::ScoreCard, stormm::review::ScoreCard, stormm::structure::ScoreCard, stormm::synthesis::ScoreCard
• setLennardJonesCutoff() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setLigandHeavyAtomSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setLigandHighlight() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setLigandLightAtomSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setLigandLineColor() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setLigandLineWidth() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setLightingMode() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setListIndex() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• setLJCoefficients() : stormm::structure::MeshForceField< T >
• setLJSoftcoreParameter() : stormm::structure::MeshForceField< T >
• setLJSoftcoreParameters() : stormm::structure::MeshForceField< T >
• setLocalPosScalingBits() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setLowerBound() : stormm::diskutil::BinaryFileContent
• setLowTemperature() : stormm::namelist::RemdControls
• setMaccsFieldNumber() : stormm::namelist::MdlMolDataRequest, stormm::structure::MdlMolDataRequest
• setMargin() : stormm::chemistry::Approx, stormm::stmath::Approx, stormm::synthesis::Approx, stormm::testing::Approx, stormm::topology::Approx, stormm::trajectory::Approx
• setMaximumRange() : stormm::energy::LayeredPotentialMetrics
• setMaxReplicas() : stormm::namelist::RemdControls
• setMeasurements() : stormm::structure::BackgroundMeshComposition< T >
• setMeshDimension() : stormm::review::MeshParameters, stormm::structure::MeshParameters
• setMeshParameters() : stormm::review::BackgroundMesh< T >, stormm::structure::BackgroundMesh< T >
• setMeshPosition() : stormm::namelist::ReceptorControls
• setMeshSubdivisions() : stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setMinimumDistance() : stormm::structure::ClashReport, stormm::synthesis::ClashReport
• setMinimumSigmaRatio() : stormm::structure::ClashReport, stormm::synthesis::ClashReport
• setMinimumSignificantRange() : stormm::energy::LogScaleSpline< T4 >, stormm::stmath::LogScaleSpline< T4 >
• setMixingRule() : stormm::energy::LayeredPotentialMetrics
• setMode() : stormm::energy::PMIGrid
• setNestedBullet() : stormm::review::OrderedList
• setNestedStyle() : stormm::review::OrderedList
• setNonbondedMethod() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setNTWarpMultiplicity() : stormm::energy::MolecularMechanicsControls, stormm::mm::DynamicsControls, stormm::mm::MolecularMechanicsControls, stormm::namelist::DynamicsControls, stormm::stmath::MolecularMechanicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls, stormm::trajectory::MolecularMechanicsControls
• setOcclusionPenalty() : stormm::review::BackgroundMesh< T >, stormm::structure::BackgroundMesh< T >
• setOpeningBracketChar() : stormm::reporting::ProgressBar
• setOrder() : stormm::structure::MdlMolBond
• setOrigin() : stormm::namelist::MeshControls, stormm::review::MeshParameters, stormm::structure::MeshParameters
• setOutputCoordinateFormat() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setOutputFile() : stormm::topology::AtomGraphStage
• setOutputScope() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setOutputStream() : stormm::reporting::ProgressBar
• setOutputSyntax() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setParticleMeshEwaldMethod() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setPeriodicity() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setPhaseAngle() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setPointer() : stormm::card::Hybrid< T >, stormm::chemistry::Hybrid< T >, stormm::diskutil::Hybrid< T >, stormm::energy::Hybrid< T >, stormm::generalized_born_defaults::Hybrid< T >, stormm::mm::Hybrid< T >, stormm::numerics::Hybrid< T >, stormm::random::Hybrid< T >, stormm::restraints::Hybrid< T >, stormm::review::Hybrid< T >, stormm::stmath::Hybrid< T >, stormm::structure::Hybrid< T >, stormm::synthesis::Hybrid< T >, stormm::topology::Hybrid< T >, stormm::trajectory::Hybrid< T >
• setPolicy() : stormm::namelist::NamelistElement
• setPositionalRestraintAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setPotential() : stormm::namelist::MeshControls
• setPotentialFieldBorderDisplay() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setPrintingProtocol() : stormm::mm::SystemCache, stormm::review::SystemCache, stormm::structure::SystemCache, stormm::synthesis::SystemCache, stormm::testing::SystemCache, stormm::trajectory::SystemCache
• setProbeRadius() : stormm::review::BackgroundMesh< T >, stormm::structure::BackgroundMesh< T >
• setProductionStride() : stormm::namelist::RandomControls
• setRandomCacheDepth() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setRandomSeed() : stormm::namelist::RandomControls
• setRangeCompounding() : stormm::energy::LayeredPotentialMetrics
• setRattleIterations() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setRattleTolerance() : stormm::energy::Thermostat, stormm::mm::DynamicsControls, stormm::mm::Thermostat, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls, stormm::trajectory::Thermostat
• setReactivity() : stormm::structure::MdlMolBond
• setRealDataFormat() : stormm::energy::PMIGrid
• setRealValue() : stormm::namelist::NamelistElement
• setReceptorHeavyAtomSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setReceptorHighlight() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setReceptorLightAtomSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setReceptorLineColor() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setReceptorLineWidth() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setRecommendedMappingMethod() : stormm::energy::PMIGrid
• setRefreshAtomIndex() : stormm::synthesis::NonbondedWorkUnit
• setRefreshWorkCode() : stormm::synthesis::NonbondedWorkUnit
• setRemdType() : stormm::namelist::RemdControls
• setReplicaCount() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setReportedQuantities() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setReportFileName() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setReportFileWidth() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setReportVariable() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setResumeCheckInterval() : stormm::namelist::NiceControls
• setRho() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setRingCompletion() : stormm::chemistry::BondedNode
• setRingStatus() : stormm::structure::MdlMolBond
• setRulers() : stormm::structure::BackgroundMeshComposition< T >
• setRunningCheckInterval() : stormm::namelist::NiceControls
• setSaltConcentration() : stormm::namelist::SolventControls
• setScalingBits() : stormm::namelist::MeshControls, stormm::review::MeshParameters, stormm::structure::MeshParameters
• setSdfModficiationPolicy() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setSdfNotifications() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setSecondAtom() : stormm::structure::MdlMolBond
• setSectionDetails() : stormm::review::SectionContents
• setSigma() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setSMPCount() : stormm::card::GpuDetails, stormm::energy::GpuDetails, stormm::mm::GpuDetails, stormm::random::GpuDetails, stormm::stmath::GpuDetails, stormm::structure::GpuDetails, stormm::synthesis::GpuDetails, stormm::testing::GpuDetails, stormm::trajectory::GpuDetails
• setSource() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setSpacing() : stormm::namelist::MeshControls
• setSpeedThreshold() : stormm::review::Watcher
• setStartingFrame() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setState() : stormm::random::Xoroshiro128pGenerator, stormm::random::Xoshiro256ppGenerator, stormm::stmath::Xoshiro256ppGenerator, stormm::synthesis::Xoshiro256ppGenerator, stormm::testing::Xoshiro256ppGenerator, stormm::trajectory::Xoshiro256ppGenerator
• setStateSampling() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setSteepestDescentCycles() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setStencilKind() : stormm::review::MeshParameters, stormm::structure::MeshParameters
• setStepCount() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setStereochemistry() : stormm::structure::MdlMolBond
• setStiffness() : stormm::modeling::ForceFieldElement, stormm::namelist::BoundedRestraint, stormm::namelist::ForceFieldElement, stormm::restraints::BoundedRestraint
• setStiffnesses() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setStrategy() : stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setStreamCount() : stormm::namelist::RandomControls
• setStringValue() : stormm::namelist::NamelistElement
• setStyle() : stormm::review::OrderedList
• setSubstrate() : stormm::structure::MdlMolProperty
• setSurfaceAreaScalingFactor() : stormm::namelist::SolventControls
• setSwapStore() : stormm::namelist::RemdControls
• setSynthesis() : stormm::mm::SynthesisCacheMap, stormm::review::SynthesisCacheMap, stormm::structure::SynthesisCacheMap, stormm::synthesis::SynthesisCacheMap, stormm::trajectory::SynthesisCacheMap
• setSynthesisForceLoading() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• sett_insr : stormm::energy::SyAtomUpdateKit< T, T2, T4 >, stormm::mm::SyAtomUpdateKit< T, T2, T4 >, stormm::structure::SyAtomUpdateKit< T, T2, T4 >, stormm::synthesis::SyAtomUpdateKit< T, T2, T4 >, stormm::trajectory::SyAtomUpdateKit< T, T2, T4 >
• setTargetSite() : stormm::namelist::BoundedRestraint, stormm::restraints::BoundedRestraint
• setTemperature() : stormm::energy::Thermostat, stormm::mm::Thermostat, stormm::trajectory::Thermostat
• setTemperatureDistributionMethod() : stormm::namelist::RemdControls
• setTerminalWidth() : stormm::reporting::ProgressBar
• setTheme() : stormm::mm::PPPMControls, stormm::namelist::PPPMControls
• setThermostatCacheConfig() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setThermostatCacheDepth() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setThermostatEvolutionEnd() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setThermostatEvolutionStart() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setThermostatGroup() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setThermostatKind() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setThermostatSeed() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setTimeStep() : stormm::energy::Thermostat, stormm::mm::DynamicsControls, stormm::mm::Thermostat, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls, stormm::trajectory::Thermostat
• setTitle() : stormm::display::NamelistEmulator, stormm::namelist::NamelistEmulator, stormm::review::SectionContents, stormm::testing::NamelistEmulator, stormm::topology::AtomGraphStage
• settle_geom : stormm::energy::SyAtomUpdateKit< T, T2, T4 >, stormm::mm::SyAtomUpdateKit< T, T2, T4 >, stormm::structure::SyAtomUpdateKit< T, T2, T4 >, stormm::synthesis::SyAtomUpdateKit< T, T2, T4 >, stormm::trajectory::SyAtomUpdateKit< T, T2, T4 >
• settle_group_count : stormm::topology::ConstraintTable
• settle_h1_atoms : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::topology::ConstraintTable, stormm::trajectory::ConstraintKit< T >
• settle_h2_atoms : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::topology::ConstraintTable, stormm::trajectory::ConstraintKit< T >
• settle_mass : stormm::energy::SyAtomUpdateKit< T, T2, T4 >, stormm::mm::SyAtomUpdateKit< T, T2, T4 >, stormm::structure::SyAtomUpdateKit< T, T2, T4 >, stormm::synthesis::SyAtomUpdateKit< T, T2, T4 >, stormm::trajectory::SyAtomUpdateKit< T, T2, T4 >
• settle_mh : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_mhrmt : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_mo : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_moh : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_mormt : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_ox_atoms : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::topology::ConstraintTable, stormm::trajectory::ConstraintKit< T >
• settle_param_idx : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::topology::ConstraintTable, stormm::trajectory::ConstraintKit< T >
• settle_parameter_count : stormm::topology::ConstraintTable
• settle_ra : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_rb : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• settle_rc : stormm::mm::ConstraintKit< T >, stormm::structure::ConstraintKit< T >, stormm::synthesis::ConstraintKit< T >, stormm::topology::ConstraintKit< T >, stormm::trajectory::ConstraintKit< T >
• setTodoChar() : stormm::reporting::ProgressBar
• setTolerance() : stormm::namelist::RemdControls
• setTopology() : stormm::energy::LocalExclusionMask, stormm::mm::LocalExclusionMask, stormm::review::MeshFoundation, stormm::structure::MeshFoundation
• setTopologyFileName() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setTopologyPointer() : stormm::structure::ClashReport, stormm::synthesis::ClashReport
• setTotalCycles() : stormm::mm::MinimizeControls, stormm::namelist::MinimizeControls
• setTotalSwapCount() : stormm::namelist::RemdControls
• setTrajectoryFileKind() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setTrajectoryFileName() : stormm::namelist::MoleculeSystem, stormm::synthesis::MoleculeSystem
• setTrajectoryFusionProtocol() : stormm::mm::SystemCache, stormm::review::SystemCache, stormm::structure::SystemCache, stormm::synthesis::SystemCache, stormm::testing::SystemCache, stormm::trajectory::SystemCache
• setTrajectoryPrintFrequency() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setUnitCellVectors() : stormm::energy::LayeredPotentialMetrics
• setUpdateWorkUnit() : stormm::synthesis::ValenceDelegator
• setUpperBound() : stormm::diskutil::BinaryFileContent
• setUreyBradleyAccumulatorWorkUnit() : stormm::synthesis::ValenceDelegator
• setUreyBradleyParameters() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setUsername() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setUseSettle() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setUseShake() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setValenceMethod() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setValue() : stormm::chemistry::Approx, stormm::stmath::Approx, stormm::synthesis::Approx, stormm::testing::Approx, stormm::topology::Approx, stormm::trajectory::Approx
• setVanDerWaals14Screening() : stormm::topology::AtomGraphStage
• setVanDerWaalsCutoff() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setVanDerWaalsScaling() : stormm::modeling::ForceFieldElement, stormm::namelist::ForceFieldElement
• setVariableName() : stormm::namelist::ReportTable, stormm::review::ReportTable
• setVariableRanges() : stormm::synthesis::SynthesisPermutor
• setVdw14Screening() : stormm::mm::DynamicsControls, stormm::namelist::DynamicsControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setVdwClashRatio() : stormm::mm::MinimizeControls, stormm::namelist::MeshControls, stormm::namelist::MinimizeControls
• setVdwSummation() : stormm::mm::DynamicsControls, stormm::mm::MinimizeControls, stormm::mm::PPPMControls, stormm::namelist::DynamicsControls, stormm::namelist::MinimizeControls, stormm::namelist::PPPMControls, stormm::synthesis::DynamicsControls, stormm::testing::DynamicsControls, stormm::trajectory::DynamicsControls
• setVdwTransitionIntensity() : stormm::energy::LayeredPotentialMetrics
• setVdwTransitionMidpoint() : stormm::energy::LayeredPotentialMetrics
• setVelocityScalingBits() : stormm::mm::PrecisionControls, stormm::namelist::PrecisionControls
• setWallTimeData() : stormm::namelist::ReportControls, stormm::review::ReportControls, stormm::structure::ReportControls
• setWarmupCycles() : stormm::namelist::RandomControls
• setWarningFileName() : stormm::namelist::FilesControls, stormm::review::FilesControls, stormm::synthesis::FilesControls, stormm::testing::FilesControls
• setWaterHeavyAtomSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setWaterLightAtomSize() : stormm::namelist::RenderOptions, stormm::review::RenderOptions
• setWaterResidueName() : stormm::chemistry::AtomGraph, stormm::data_types::AtomGraph, stormm::energy::AtomGraph, stormm::mm::AtomGraph, stormm::modeling::AtomGraph, stormm::namelist::AtomGraph, stormm::restraints::AtomGraph, stormm::review::AtomGraph, stormm::structure::AtomGraph, stormm::synthesis::AtomGraph, stormm::testing::AtomGraph, stormm::topology::AtomGraph, stormm::trajectory::AtomGraph
• setWellDepth() : stormm::review::BackgroundMesh< T >, stormm::structure::BackgroundMesh< T >
• setWorkTimeEnd() : stormm::namelist::NiceControls
• setWorkTimeStart() : stormm::namelist::NiceControls
• shacc_fp_scale : stormm::energy::PMIGridReader, stormm::energy::PMIGridWriter
• shake_ext : stormm::review::WatcherReader, stormm::review::WatcherWriter
• shake_fails : stormm::review::WatcherReader, stormm::review::WatcherWriter
• short_id : stormm::trajectory::ValidCoordinateTypes
• shortFormatAccumulation() : stormm::energy::PMIGrid
• showBar() : stormm::reporting::ProgressBar
• shrinkToFit() : stormm::card::Hybrid< T >, stormm::chemistry::CoordinateSeries< T >, stormm::chemistry::Hybrid< T >, stormm::diskutil::CoordinateSeries< T >, stormm::diskutil::Hybrid< T >, stormm::energy::CoordinateSeries< T >, stormm::energy::Hybrid< T >, stormm::generalized_born_defaults::Hybrid< T >, stormm::mm::Hybrid< T >, stormm::numerics::Hybrid< T >, stormm::random::Hybrid< T >, stormm::restraints::Hybrid< T >, stormm::review::CoordinateSeries< T >, stormm::review::Hybrid< T >, stormm::stmath::CoordinateSeries< T >, stormm::stmath::Hybrid< T >, stormm::structure::CoordinateSeries< T >, stormm::structure::Hybrid< T >, stormm::synthesis::CoordinateSeries< T >, stormm::synthesis::Hybrid< T >, stormm::testing::CoordinateSeries< T >, stormm::topology::Hybrid< T >, stormm::trajectory::CoordinateSeries< T >, stormm::trajectory::Hybrid< T >
• size() : stormm::card::Hybrid< T >, stormm::chemistry::Approx, stormm::chemistry::Hybrid< T >, stormm::diskutil::Hybrid< T >, stormm::energy::Hybrid< T >, stormm::generalized_born_defaults::Hybrid< T >, stormm::generalized_born_defaults::NeckGeneralizedBornTable, stormm::mm::Hybrid< T >, stormm::mm::ReductionBridge, stormm::numerics::Hybrid< T >, stormm::random::Hybrid< T >, stormm::restraints::Hybrid< T >, stormm::review::Hybrid< T >, stormm::stmath::Approx, stormm::stmath::Hybrid< T >, stormm::stmath::ReductionBridge, stormm::structure::Hybrid< T >, stormm::synthesis::Approx, stormm::synthesis::Hybrid< T >, stormm::testing::Approx, stormm::topology::Approx, stormm::topology::Hybrid< T >, stormm::trajectory::Approx, stormm::trajectory::Hybrid< T >
• softcore_lja : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• softcore_ljb : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• softcore_ljc : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• softcore_ljd : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• softcore_lje : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• softcore_ljf : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• softcore_qq : stormm::review::MeshFFKit< T >, stormm::structure::MeshFFKit< T >
• SolventControls() : stormm::namelist::SolventControls
• sortAtomSets() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• sortStates() : stormm::chemistry::IndigoAtomCenter
• sp_cache : stormm::energy::ThermostatWriter< T >, stormm::mm::ThermostatReader< T >, stormm::mm::ThermostatWriter< T >, stormm::trajectory::ThermostatReader< T >, stormm::trajectory::ThermostatWriter< T >
• sp_detail_mask : stormm::energy::LogSplineTable< T4 >, stormm::energy::PPIeKit< T >, stormm::energy::PPIKit< T, T4 >, stormm::stmath::LogSplineTable< T4 >
• sp_inv_masses : stormm::chemistry::ChemicalDetailsKit, stormm::energy::ChemicalDetailsKit, stormm::mm::ChemicalDetailsKit, stormm::restraints::ChemicalDetailsKit, stormm::review::ChemicalDetailsKit, stormm::structure::ChemicalDetailsKit, stormm::synthesis::ChemicalDetailsKit, stormm::topology::ChemicalDetailsKit, stormm::trajectory::ChemicalDetailsKit
• sp_masses : stormm::chemistry::ChemicalDetailsKit, stormm::energy::ChemicalDetailsKit, stormm::mm::ChemicalDetailsKit, stormm::restraints::ChemicalDetailsKit, stormm::review::ChemicalDetailsKit, stormm::structure::ChemicalDetailsKit, stormm::synthesis::ChemicalDetailsKit, stormm::topology::ChemicalDetailsKit, stormm::trajectory::ChemicalDetailsKit
• spData() : stormm::energy::CacheResource, stormm::energy::ImplicitSolventWorkspace, stormm::energy::MolecularMechanicsControls, stormm::energy::PPITable, stormm::energy::RestraintApparatus, stormm::generalized_born_defaults::NeckGeneralizedBornTable, stormm::mm::CacheResource, stormm::mm::ImplicitSolventWorkspace, stormm::mm::MolecularMechanicsControls, stormm::mm::RestraintApparatus, stormm::restraints::RestraintApparatus, stormm::stmath::MolecularMechanicsControls, stormm::structure::CacheResource, stormm::structure::RestraintApparatus, stormm::structure::RMSDPlan, stormm::synthesis::ImplicitSolventWorkspace, stormm::synthesis::RestraintApparatus, stormm::synthesis::SynthesisPermutor, stormm::trajectory::CacheResource, stormm::trajectory::MolecularMechanicsControls
• speData() : stormm::energy::PPITable
• speed_limit : stormm::review::WatcherReader, stormm::review::WatcherWriter
• speed_stages : stormm::review::WatcherReader, stormm::review::WatcherWriter
• speed_steps : stormm::review::WatcherReader, stormm::review::WatcherWriter
• speeds : stormm::review::WatcherReader, stormm::review::WatcherWriter
• spGaussianRandomNumber() : stormm::random::Ran2Generator, stormm::random::Xoroshiro128pGenerator, stormm::random::Xoshiro256ppGenerator, stormm::stmath::Ran2Generator, stormm::stmath::Xoshiro256ppGenerator, stormm::synthesis::Xoshiro256ppGenerator, stormm::testing::Xoshiro256ppGenerator, stormm::trajectory::Xoshiro256ppGenerator
• split() : stormm::synthesis::VolumePartition
• spUniformRandomNumber() : stormm::random::Ran2Generator, stormm::random::Xoroshiro128pGenerator, stormm::random::Xoshiro256ppGenerator, stormm::stmath::Ran2Generator, stormm::stmath::Xoshiro256ppGenerator, stormm::synthesis::Xoshiro256ppGenerator, stormm::testing::Xoshiro256ppGenerator, stormm::trajectory::Xoshiro256ppGenerator
• squared_accumulators : stormm::energy::ScoreCardReader, stormm::energy::ScoreCardWriter, stormm::mm::ScoreCardWriter
• start_line : stormm::docs::CppScope
• start_pos : stormm::docs::CppScope
• state_xy : stormm::energy::ThermostatWriter< T >, stormm::mm::ThermostatReader< T >, stormm::mm::ThermostatWriter< T >, stormm::trajectory::ThermostatReader< T >, stormm::trajectory::ThermostatWriter< T >
• state_zw : stormm::energy::ThermostatWriter< T >, stormm::mm::ThermostatReader< T >, stormm::mm::ThermostatWriter< T >, stormm::trajectory::ThermostatReader< T >, stormm::trajectory::ThermostatWriter< T >
• StaticExclusionMask() : stormm::energy::StaticExclusionMask, stormm::mm::StaticExclusionMask, stormm::structure::StaticExclusionMask, stormm::synthesis::StaticExclusionMask
• StaticExclusionMaskReader() : stormm::energy::StaticExclusionMaskReader, stormm::mm::StaticExclusionMaskReader, stormm::structure::StaticExclusionMaskReader, stormm::synthesis::StaticExclusionMaskReader
• StaticExclusionMaskSynthesis() : stormm::energy::StaticExclusionMaskSynthesis, stormm::mm::StaticExclusionMaskSynthesis, stormm::synthesis::StaticExclusionMaskSynthesis
• stencil_kind : stormm::review::MeshParamKit, stormm::structure::MeshParamKit
• step : stormm::energy::MMControlKit< T >, stormm::energy::ThermostatWriter< T >, stormm::mm::MMControlKit< T >, stormm::mm::ThermostatReader< T >, stormm::mm::ThermostatWriter< T >, stormm::stmath::MMControlKit< T >, stormm::trajectory::MMControlKit< T >, stormm::trajectory::ThermostatReader< T >, stormm::trajectory::ThermostatWriter< T >
• StopWatch() : stormm::chemistry::StopWatch, stormm::mm::StopWatch, stormm::synthesis::StopWatch, stormm::testing::StopWatch
• storeAngleInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeAngleRestraintInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeCmapInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeCompositeBondInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeCompositeDihedralInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeConstraintGroupInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeDihedralRestraintInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeDistanceRestraintInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeInferred14Instructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storePositionalRestraintInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeSettleGroupInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• storeVirtualSiteInstructions() : stormm::energy::ValenceWorkUnit, stormm::synthesis::ValenceWorkUnit
• strategy : stormm::structure::RMSDPlanReader< T >
• stride : stormm::energy::CellOriginsReader, stormm::energy::CellOriginsWriter
• subdivide() : stormm::energy::Brickwork, stormm::synthesis::Brickwork
• sum_deijda : stormm::energy::ISWorkspaceKit< T >, stormm::mm::ISWorkspaceKit< T >, stormm::synthesis::ISWorkspaceKit< T >
• sum_deijda_ovrf : stormm::energy::ISWorkspaceKit< T >, stormm::mm::ISWorkspaceKit< T >, stormm::synthesis::ISWorkspaceKit< T >
• supertile_map_bounds : stormm::energy::SeMaskSynthesisReader, stormm::synthesis::SeMaskSynthesisReader
• supertile_map_idx : stormm::energy::SeMaskSynthesisReader, stormm::energy::StaticExclusionMaskReader, stormm::mm::StaticExclusionMaskReader, stormm::structure::StaticExclusionMaskReader, stormm::synthesis::SeMaskSynthesisReader, stormm::synthesis::StaticExclusionMaskReader
• supertile_stride_count : stormm::energy::StaticExclusionMaskReader, stormm::mm::StaticExclusionMaskReader, stormm::structure::StaticExclusionMaskReader, stormm::synthesis::StaticExclusionMaskReader
• suppressHelpOnNoArgs() : stormm::namelist::CommandLineParser, stormm::testing::CommandLineParser
• surf : stormm::topology::CmapTerm< T >
• surf_dim : stormm::topology::CmapTerm< T >
• surf_idx : stormm::topology::CmapTerm< T >
• swapTarget() : stormm::card::Hybrid< T >, stormm::chemistry::Hybrid< T >, stormm::diskutil::Hybrid< T >, stormm::energy::Hybrid< T >, stormm::generalized_born_defaults::Hybrid< T >, stormm::mm::Hybrid< T >, stormm::numerics::Hybrid< T >, stormm::random::Hybrid< T >, stormm::restraints::Hybrid< T >, stormm::review::Hybrid< T >, stormm::stmath::Hybrid< T >, stormm::structure::Hybrid< T >, stormm::synthesis::Hybrid< T >, stormm::topology::Hybrid< T >, stormm::trajectory::Hybrid< T >
• SyAtomUpdateKit() : stormm::energy::SyAtomUpdateKit< T, T2, T4 >, stormm::mm::SyAtomUpdateKit< T, T2, T4 >, stormm::structure::SyAtomUpdateKit< T, T2, T4 >, stormm::synthesis::SyAtomUpdateKit< T, T2, T4 >, stormm::trajectory::SyAtomUpdateKit< T, T2, T4 >
• symm_atoms : stormm::structure::RMSDPlanReader< T >
• symm_bounds : stormm::structure::RMSDPlanReader< T >
• symm_ranges : stormm::structure::RMSDPlanReader< T >
• SyNonbondedKit() : stormm::energy::SyNonbondedKit< T, T2 >, stormm::mm::SyNonbondedKit< T, T2 >, stormm::structure::SyNonbondedKit< T, T2 >, stormm::synthesis::SyNonbondedKit< T, T2 >, stormm::trajectory::SyNonbondedKit< T, T2 >
• SynthesisCacheMap() : stormm::mm::SynthesisCacheMap, stormm::review::SynthesisCacheMap, stormm::structure::SynthesisCacheMap, stormm::synthesis::SynthesisCacheMap, stormm::trajectory::SynthesisCacheMap
• SynthesisMapReader() : stormm::review::SynthesisMapReader, stormm::structure::SynthesisMapReader, stormm::synthesis::SynthesisMapReader
• SynthesisPermutor() : stormm::synthesis::SynthesisPermutor
• SyPermutorKit() : stormm::synthesis::SyPermutorKit< T >
• SyRestraintKit() : stormm::energy::SyRestraintKit< T, T2, T4 >, stormm::mm::SyRestraintKit< T, T2, T4 >, stormm::synthesis::SyRestraintKit< T, T2, T4 >
• sys_offsets : stormm::energy::ConvolutionKit< T >
• system_cell_grids : stormm::energy::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::energy::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::trajectory::CellGridReader< T, Tacc, Tcalc, T4 >
• system_cell_invu : stormm::energy::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::energy::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::trajectory::CellGridReader< T, Tacc, Tcalc, T4 >
• system_cell_umat : stormm::energy::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::energy::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::trajectory::CellGridReader< T, Tacc, Tcalc, T4 >
• system_chain_bounds : stormm::energy::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::energy::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::trajectory::CellGridReader< T, Tacc, Tcalc, T4 >
• system_count : stormm::chemistry::CondensateReader, stormm::chemistry::PsSynthesisReader, stormm::energy::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::energy::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::energy::ConvolutionKit< T >, stormm::energy::PsSynthesisBorders, stormm::energy::PsSynthesisReader, stormm::energy::PsSynthesisWriter, stormm::energy::ScoreCardReader, stormm::energy::ScoreCardWriter, stormm::mm::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::mm::PsSynthesisReader, stormm::mm::PsSynthesisWriter, stormm::mm::ScoreCardWriter, stormm::stmath::PsSynthesisWriter, stormm::structure::CondensateReader, stormm::structure::CondensateWriter, stormm::structure::PsSynthesisReader, stormm::structure::PsSynthesisWriter, stormm::synthesis::CondensateBorders, stormm::synthesis::CondensateReader, stormm::synthesis::CondensateWriter, stormm::synthesis::PsSynthesisBorders, stormm::synthesis::PsSynthesisReader, stormm::synthesis::PsSynthesisWriter, stormm::synthesis::SyPermutorKit< T >, stormm::testing::PsSynthesisWriter, stormm::trajectory::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::trajectory::CondensateBorders, stormm::trajectory::CondensateReader, stormm::trajectory::CondensateWriter, stormm::trajectory::PsSynthesisBorders, stormm::trajectory::PsSynthesisReader, stormm::trajectory::PsSynthesisWriter
• system_pmig_invu : stormm::energy::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::energy::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridReader< T, Tacc, Tcalc, T4 >, stormm::mm::CellGridWriter< T, Tacc, Tcalc, T4 >, stormm::trajectory::CellGridReader< T, Tacc, Tcalc, T4 >
• system_settings : stormm::synthesis::SyPermutorKit< T >
• system_settings_limits : stormm::synthesis::SyPermutorKit< T >
• SystemCache() : stormm::mm::SystemCache, stormm::review::SystemCache, stormm::structure::SystemCache, stormm::synthesis::SystemCache, stormm::testing::SystemCache, stormm::trajectory::SystemCache
• SyValenceKit() : stormm::energy::SyValenceKit< T >, stormm::mm::SyValenceKit< T >, stormm::structure::SyValenceKit< T >, stormm::synthesis::SyValenceKit< T >, stormm::trajectory::SyValenceKit< T >