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

- s -

• s : BondedInteraction , em_state , gmx_ana_selvalue_t
• s2g0X : PmeShared
• s2g0Y : PmeShared
• s2g1X : PmeShared
• s2g1Y : PmeShared
• s_communicator : gmx::test::MdrunTestFixtureBase
• s_defaultTrajectoryTolerances : gmx::test::TrajectoryComparison
• s_globalOutputTempDirectory : gmx::test::TestFileManager::Impl
• s_hwinfo : gmx::test::MdrunTestFixtureBase
• s_inputDirectory : gmx::test::TestFileManager::Impl
• s_inputFile : gmx::test::anonymous_namespace{pmetest.cpp}::PmeTest
• s_mutexForTestFileManager : anonymous_namespace{domain_decomposition.cpp}::DomDecSpecialCasesTest , gmx::test::anonymous_namespace{pmetest.cpp}::PmeTest
• s_nPoints : gmx::test::SimdBaseTest
• s_numReductionBlockBits : gmx::ThreadForceBuffer< ForceBufferElementType >
• s_reductionBlockSize : gmx::ThreadForceBuffer< ForceBufferElementType >
• s_simulationDatabaseDirectory : gmx::test::TestFileManager::Impl
• s_skipReason : gmx::test::anonymous_namespace{threadaffinity_mpi.cpp}::RequireEvenRankCountWithAtLeastFourRanks , gmx::test::AllowAnyRankCount , gmx::test::RequireRankCount< requiredNumRanks > , gmx::test::RequireMinimumRankCount< minimumNumRanks >
• s_subscriberBufferMinimumSize : gmx::test::anonymous_namespace{observablesreducer.cpp}::Subscriber
• s_subscriberOffset : gmx::test::anonymous_namespace{observablesreducer.cpp}::Subscriber
• s_testFileManager : anonymous_namespace{domain_decomposition.cpp}::DomDecSpecialCasesTest , gmx::test::anonymous_namespace{pmetest.cpp}::PmeTest
• s_tprFileNames : anonymous_namespace{domain_decomposition.cpp}::DomDecSpecialCasesTest , gmx::test::anonymous_namespace{pmetest.cpp}::PmeTest
• sampleCoordAndPmf() : gmx::BiasState
• sampleCount() : gmx::AnalysisDataAverageModule , gmx::AnalysisDataFrameAverager
• samplePmf() : gmx::PointState
• sampleProbabilityWeights() : gmx::BiasState
• sampleTimeStep_ : gmx::test::FrictionMetricTest
• sampleUmbrellaGridpoint() : gmx::CoordState
• SansDebye() : gmx::SansDebye
• SasaModuleData() : gmx::analysismodules::anonymous_namespace{sasa.cpp}::SasaModuleData
• saveCheckpointState() : gmx::EnergyData::Element , gmx::ExpandedEnsembleElement , gmx::FirstOrderPressureCoupling , gmx::FreeEnergyPerturbationData::Element , gmx::ICheckpointHelperClient , gmx::MttkData , gmx::NoseHooverChainsData , gmx::ParrinelloRahmanBarostat , gmx::PullElement , gmx::StatePropagatorData::Element , gmx::VelocityScalingTemperatureCoupling
• saveEdsamPointer() : gmx::Constraints
• SaxsDebye() : gmx::SaxsDebye
• sbase : gmx_ana_poscalc_t
• sblock : gmx::shakedata
• sc : gmx_sel_lexer_t
• sc_ : gmx::SelectionCollection::Impl
• sc_colvarStateFileName_ : gmx::ColvarsForceProviderState
• sc_colvarStateFileSizeName_ : gmx::ColvarsForceProviderState
• sc_maxDonorsPerResidue : gmx::analysismodules::anonymous_namespace{dssp.cpp}::ResInfo
• sc_nColvarsAtomsName_ : gmx::ColvarsForceProviderState
• sc_numEnergyGroups : gmx::test::TestSystem
• sc_xOldWholeName_ : gmx::ColvarsForceProviderState
• scalarForce : pull_coord_work_t
• scale : t_forcetable , gmx::MttkData , PmeGpuDynamicParams
• scaleAll() : gmx::AbstractAverageHistogram
• scaleAllByVector() : gmx::AbstractAverageHistogram
• scaleBox() : EwaldBoxZScaler
• scaleCoordinates() : gmx::UpdateConstrainGpu::Impl
• scaled_lagrange_multiplier : gmx::shakedata
• scaleInternalToUserInput() : gmx::DimParams
• scaleOperationOnly() : gmx::TranslateAndScale
• scaleSingle() : gmx::AbstractAverageHistogram
• scaleTarget() : gmx::PointState
• scaleTargetByMetric : gmx::BiasParams
• scaleUserInputToInternal() : gmx::DimParams
• scaleVelocities() : gmx::UpdateConstrainGpu::Impl
• scanTemporary : gmx::GpuPairlistSorting
• scanTemporaryNalloc : gmx::GpuPairlistSorting
• scheduleCheckOfLocalTopology() : gmx::LocalTopologyChecker
• scheduleTask() : gmx::AndersenTemperatureCoupling , gmx::CheckpointHelper , gmx::CompositeSimulatorElement , gmx::ComputeGlobalsElement< algorithm > , gmx::ConstraintsElement< variable > , gmx::EnergyData::Element , gmx::ExpandedEnsembleElement , gmx::FirstOrderPressureCoupling , gmx::ForceElement , gmx::FreeEnergyPerturbationData::Element , gmx::ISimulatorElement , gmx::MttkElement , gmx::MttkBoxScaling , gmx::NoseHooverChainsElement , gmx::ParrinelloRahmanBarostat , gmx::Propagator< integrationStage > , gmx::PullElement , gmx::StatePropagatorData::Element , gmx::TrajectoryElement , gmx::VelocityScalingTemperatureCoupling
• sci : gmx::GpuPairlist , gmx::nbnxn_sci_t
• sciAllocationSize : gmx::GpuPairlist
• sciCount : gmx::GpuPairlistSorting
• sciCountedNalloc : gmx::GpuPairlistSorting
• sciHistogram : gmx::GpuPairlistSorting
• sciHistogramNalloc : gmx::GpuPairlistSorting
• sciOffset : gmx::GpuPairlistSorting
• sciOffsetNalloc : gmx::GpuPairlistSorting
• sciSorted : gmx::GpuPairlistSorting
• sciSortedNalloc : gmx::GpuPairlistSorting
• scopedTransform() : gmx::IKeyValueTreeTransformRules
• searchCount_ : gmx::SearchCycleCounting
• SearchMode : gmx::AnalysisNeighborhood
• secondWorstValue() : gmx::NelderMeadSimplex
• Section : gmx::OptionsAssigner::Impl
• sectionDepth_ : gmx::HelpWriterContext::Impl
• SectionList : gmx::internal::OptionSectionImpl
• SectionPointer : gmx::internal::OptionSectionImpl
• sectionStack_ : gmx::OptionsAssigner::Impl
• seed : gmx::test::anonymous_namespace{langevin.cpp}::LangevinTestParameters , gmx_repl_ex , gmx::AwhParams , gmx::ThreeFry2x64General< rounds, internalCounterBits >
• seed_ : gmx::test::BiasTest , gmx::test::BiasFepLambdaStateTest
• sel : gmx_ana_selcollection_t , gmx::analysismodules::anonymous_namespace{msd.cpp}::MsdGroupData
• select_on_container_copy_construction() : gmx::HostAllocationPolicy
• selectDataSet() : gmx::AnalysisDataStorageFrame , gmx::AnalysisDataHandle
• selected() : gmx::SelectionPosition
• selection() : gmx::SelectionCollection
• Selection() : gmx::Selection
• SelectionCollection() : gmx::SelectionCollection
• selectionCollection() : gmx::AnalysisDataPlotSettings
• SelectionData() : gmx::internal::SelectionData
• SelectionFileOption() : gmx::SelectionFileOption
• SelectionFileOptionInfo() : gmx::SelectionFileOptionInfo
• SelectionFileOptionStorage() : gmx::SelectionFileOptionStorage
• SelectionOption() : gmx::SelectionOption
• SelectionOptionBehavior() : gmx::SelectionOptionBehavior
• SelectionOptionInfo() : gmx::SelectionOptionInfo
• SelectionOptionManager() : gmx::SelectionOptionManager
• SelectionOptionStorage : gmx::Selection , gmx::SelectionOption , gmx::SelectionOptionManager , gmx::SelectionOptionStorage
• SelectionParserSymbolIterator : gmx::SelectionParserSymbolTable , gmx::SelectionParserSymbolIterator
• SelectionParserSymbolTable : gmx::SelectionParserSymbol , gmx::SelectionParserSymbolIterator , gmx::SelectionParserSymbolTable
• SelectionPosition() : gmx::SelectionPosition
• SelectionRequest() : gmx::SelectionOptionManager::Impl::SelectionRequest
• selections_ : gmx::TrajectoryAnalysisModuleData::Impl
• selectionText() : gmx::internal::SelectionData , gmx::Selection
• SelectionTopologyProperties() : gmx::SelectionTopologyProperties
• SelectionTreeElement() : gmx::SelectionTreeElement
• SelectionTypeOption : gmx::SelectionCollection
• selectSingleFromArray() : gmx::AnalysisNeighborhoodPositions
• SelelemTemporaryValueAssigner() : anonymous_namespace{evaluate.cpp}::SelelemTemporaryValueAssigner
• selfEnergy() : gmx::CoulombCalculator< KernelCoulombType::RF > , gmx::CoulombCalculator< KernelCoulombType::EwaldAnalytical > , gmx::CoulombCalculator< KernelCoulombType::EwaldTabulated >
• SelMethodEvalContext() : gmx::SelMethodEvalContext
• sendAtom : gmx_domdec_specat_comm_t
• sendCoordinatesToPme() : gmx::PmePpCommGpu::Impl
• sendCoordinatesToPmeFromCpu() : gmx::PmePpCommGpu
• sendCoordinatesToPmeFromGpu() : gmx::PmePpCommGpu
• sendEnergies() : gmx::MimicCommunicator
• sendForces() : gmx::MimicCommunicator
• sendForcesDirectToPpGpu : gmx_pme_pp
• sendFToPpGpuAwareMpi() : gmx::PmeForceSenderGpu , gmx::PmeForceSenderGpu::Impl
• sendFToPpPeerToPeer() : gmx::PmeForceSenderGpu , gmx::PmeForceSenderGpu::Impl
• sendInitData() : gmx::MimicCommunicator
• sendxbuf : gmx::ImdSession::Impl
• seqIndex_ : gmx::test::TestReferenceChecker::Impl
• serialize() : gmx::AwhParams , gmx::WriteCheckpointDataHolder , StringTableEntry
• serializeParticle() : SimulationParticle
• serializeStringTable() : StringTable
• sessionPossible : gmx::ImdSession::Impl
• set : gmx::SimulationSignal , gmx::LincsGpu , gmx::SettleGpu , gmx::UpdateConstrainGpu::Impl , gmx::FlagsTemplate< FlagType >
• set_poscoll : gmx_ana_selmethod_t
• set_unit_system() : gmx::ColvarProxyGromacs
• setAbsTol() : gmx::test::SimdBaseTest
• setAcceptBooleanNoPrefix() : gmx::OptionsAssigner
• setAllowedValueCount() : gmx::SelectionOptionStorage
• setAlternateStepPpTaskCompletionEvent() : gmx::MdGpuGraph::Impl
• setAnharmPolarization() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setAnyValue() : gmx::KeyValueTreeValueBuilder
• setArg() : PmeSolveKernel< gridOrdering, computeEnergyAndVirial, gridIndex, subGroupSize >
• setAtomProperties() : gmx::nonbonded_verlet_t
• setAtomProperty() : AtomProperties
• setAtomRangeEnd() : gmx::DomdecZones
• SetAtoms() : gmx::SetAtoms
• setAtoms() : gmx::test::SetAtomsTest
• SetAtomsTest() : gmx::test::SetAtomsTest
• setAverageDataSets() : gmx::AnalysisDataAverageModule
• setBinWidth() : gmx::ComputeDebyeScattering
• setBound() : WorkDivision
• SetBox() : gmx::SetBox
• setBreak() : gmx::analysismodules::anonymous_namespace{dssp.cpp}::SecondaryStructuresData
• setBridge() : gmx::analysismodules::anonymous_namespace{dssp.cpp}::SecondaryStructuresData
• setBugText() : gmx::ICommandLineOptionsModuleSettings
• setCalculateAtomArea() : gmx::SurfaceAreaCalculator
• setCalculateSurfaceDots() : gmx::SurfaceAreaCalculator
• setCalculateVolume() : gmx::SurfaceAreaCalculator
• setCellIndices() : gmx::Grid
• setCheckpointHandler() : gmx::CheckpointHelperBuilder
• setColumnCount() : gmx::AnalysisDataFrameLocalData< ValueType > , gmx::AnalysisDataFrameAverager , gmx::test::AnalysisDataTestInput , gmx::AbstractAnalysisData , gmx::AnalysisData , gmx::AbstractAnalysisArrayData
• setColumnFirstLineOffset() : gmx::TextTableFormatter
• setComm() : gmx::ColvarsSimulationsParameters
• setConstraints() : gmx::Constraints , gmx::SettleData
• setContinuationChar() : gmx::TextLineWrapperSettings
• setCoordValue() : gmx::BiasState , gmx::CoordState
• setCrossBondAngles() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setCrossBondBonds() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setCubic() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setCumulative() : gmx::AnalysisDataLifetimeModule
• setCutoff() : gmx::AnalysisNeighborhood
• setDataSetCount() : gmx::AnalysisDataFrameLocalData< ValueType > , gmx::AbstractAnalysisData , gmx::AnalysisData
• setDatasetTolerance() : gmx::test::AbstractTrajectoryAnalysisModuleTestFixture
• setDebugLevel() : gmx::SelectionCollection
• setDefaultNiceLevel() : gmx::CommandLineModuleSettings
• setDefaultTolerance() : gmx::test::CommandLineTestBase , gmx::test::TestReferenceChecker
• setDefaultValue() : gmx::OptionStorageTemplate< T >
• setDefaultValueIfSet() : gmx::OptionStorageTemplate< T >
• setDescription() : gmx::AbstractOption
• setDimensions() : gmx::Grid
• setDisplayName() : gmx::CommandLineProgramContext
• setDotCount() : gmx::SurfaceAreaCalculator
• setDynamicMask() : gmx::SelectionOptionInfo
• setEnergyGroups() : gmx::EnergyGroupsPerCluster
• setEnergyOutputRequest() : gmx::anonymous_namespace{densityfitting.cpp}::DensityFitting
• setError() : gmx::AnalysisDataValue
• setErrorsAsSeparateColumn() : gmx::AbstractPlotModule
• setEtaVelocity() : gmx::MttkData
• setEvaluateForces() : gmx::Selection , gmx::SelectionOptionInfo
• setEvaluateVelocities() : gmx::Selection , gmx::SelectionOptionInfo
• setExpectedDisplayName() : gmx::test::MockModule
• setFene() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setFileAndLineNumber() : WarningHandler
• setFileName() : gmx::analysismodules::anonymous_namespace{select.cpp}::IndexFileWriterModule , gmx::AbstractPlotModule
• setFirstColumnIndent() : gmx::TextTableFormatter
• setFirstLineIndent() : gmx::TextLineWrapperSettings
• setFitGroupIndices() : gmx::DensityFittingOptions
• setFlag() : gmx::AbstractOptionStorage , gmx::AbstractOption , gmx::TrajectoryAnalysisSettings
• setFlags() : t_state , gmx::internal::SelectionData , gmx::TrajectoryAnalysisSettings
• setFoldLastColumnToNextLine() : gmx::TextTableFormatter
• setForceParameter() : InteractionOfType
• SetForces() : gmx::SetForces
• setForceSendBuffer() : gmx::PmeForceSenderGpu , gmx::PmeForceSenderGpu::Impl
• setFrameFlags() : gmx::TrajectoryAnalysisSettings
• setFreeEnergy() : gmx::PointState
• setFreeEnergyPerturbationData() : gmx::StatePropagatorData::Element
• setFromHistory() : gmx::PointState
• setGlobalOutputTempDirectory() : gmx::test::TestFileManager
• setGroup() : gmx::test::anonymous_namespace{indexutil.cpp}::IndexBlockTest
• setHarmonic() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setHelixPosition() : gmx::analysismodules::anonymous_namespace{dssp.cpp}::SecondaryStructuresData
• setHelpText() : gmx::CommandLineHelpWriter , gmx::ICommandLineOptionsModuleSettings , gmx::TrajectoryAnalysisSettings
• setHistogramSize() : gmx::HistogramSize
• setIndent() : gmx::TextLineWrapperSettings
• setIndex() : gmx::analysismodules::anonymous_namespace{dssp.cpp}::ResInfo
• setIndexGroups() : gmx::SelectionCollection
• setIndicesInDomainDecomposition() : gmx::LocalAtomSetManager
• setInfo() : gmx::GromacsException
• setInitialReferenceWeightHistogram() : gmx::PointState
• setInputAndOutputFile() : gmx::test::CommandLineTestBase
• setInputDataDirectory() : gmx::test::TestFileManager
• setInputFile() : gmx::test::CommandLineTestBase
• setInputFileContents() : gmx::test::CommandLineTestHelper , gmx::test::CommandLineTestBase
• setInputLines() : gmx::test::InteractiveTestHelper
• setInputRedirector() : gmx::FileNameOptionManager
• setInteraction() : gmx::test::anonymous_namespace{nb_free_energy.cpp}::ListInput
• setKeepFinalSpaces() : gmx::TextLineWrapperSettings
• setKnownIssues() : gmx::CommandLineHelpWriter
• setLastNewline() : gmx::test::InteractiveTestHelper
• setLegend() : gmx::AbstractPlotModule
• setLinearAngle() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setLineLength() : gmx::TextLineWrapperSettings
• setLj14Interaction() : gmx::test::anonymous_namespace{pairs.cpp}::ListInput
• setLjc14Interaction() : gmx::test::anonymous_namespace{pairs.cpp}::ListInput
• setLjcnbInteraction() : gmx::test::anonymous_namespace{pairs.cpp}::ListInput
• setLocalAtomOrder() : gmx::GridSet , gmx::nonbonded_verlet_t , gmx::PairSearch
• setLocalAtomSet() : gmx::anonymous_namespace{densityfitting.cpp}::DensityFittingSimulationParameterSetup
• setLocalAtomSetManager() : gmx::ColvarsSimulationsParameters
• setLocalMMAtomSet() : gmx::anonymous_namespace{qmmm.cpp}::QMMMSimulationParameterSetup
• setLocalQMAtomSet() : gmx::anonymous_namespace{qmmm.cpp}::QMMMSimulationParameterSetup
• setLogger() : gmx::ColvarsOptions , gmx::ColvarsSimulationsParameters , gmx::anonymous_namespace{qmmm.cpp}::QMMMSimulationParameterSetup , gmx::QMMMOptions
• setLogPmfSum() : gmx::PointState
• setMaxTime() : gmx::AnalysisDataDisplacementModule
• setMaxValueCount() : gmx::AbstractOptionStorage
• setMaxWarn() : gmx::test::SimulationRunner
• setMinValueCount() : gmx::AbstractOptionStorage
• setMode() : gmx::AnalysisNeighborhood
• setModifiableInputFile() : gmx::test::CommandLineTestBase
• setModuleDisplayName() : gmx::CommandLineHelpContext
• setModuleFlag() : gmx::test::FlagTest
• setModuleOverride() : gmx::CommandLineHelpModule
• setMorse() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setMSDHistogram() : gmx::AnalysisDataDisplacementModule
• setMultipoint() : gmx::AbstractAnalysisData , gmx::AnalysisData
• setName() : gmx::SelectionTreeElement
• setNewState() : gmx::FepStateSetting
• setNumColumnsMax() : gmx::GridSet
• setNumPositionScalingVariables : gmx::PropagatorConnection , gmx::Propagator< integrationStage >
• setNumVelocityScalingVariables : gmx::PropagatorConnection , gmx::Propagator< integrationStage >
• setOmitX() : gmx::AbstractPlotModule
• setOnlyAtoms() : gmx::SelectionOptionInfo
• setOnlyStatic() : gmx::SelectionOptionInfo
• setOptionsModuleSettings() : gmx::TrajectoryAnalysisSettings
• setOriginalId() : gmx::Selection
• setOutputFile() : gmx::test::CommandLineTestHelper , gmx::test::CommandLineTestBase
• setOutputFileWithGeneratedName() : gmx::test::CommandLineTestHelper , gmx::test::CommandLineTestBase
• setOutputPosType() : gmx::SelectionCollection
• setOutputRedirector() : gmx::CommandLineHelpModule , gmx::CommandLineModuleManager
• setOutputTempDirectory() : gmx::test::TestFileManager
• setParameters() : gmx::ColvarsOptions
• setParrinelloRahmanBoxVelocities() : gmx::EnergyData
• setPartialWeightAndCount() : gmx::PointState
• setPbc() : gmx::ListedForcesGpu::Impl , gmx::UpdateConstrainGpu::Impl
• setPBC() : gmx::TrajectoryAnalysisSettings
• setPDihedrals() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setPeriodicBoundaryConditionType() : gmx::ColvarsSimulationsParameters , gmx::anonymous_namespace{densityfitting.cpp}::DensityFittingSimulationParameterSetup , gmx::anonymous_namespace{qmmm.cpp}::QMMMSimulationParameterSetup
• setPlainOutput() : gmx::AbstractPlotModule
• setPoint() : gmx::AnalysisDataHandle
• setPoints() : gmx::AnalysisDataHandle
• setPolarization() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setPositionScaling() : gmx::MttkPropagatorConnection
• SetPrecision() : gmx::SetPrecision
• setPreviousBlockIndex() : gmx::CorrelationBlockData
• setQMExternalInputFile() : gmx::QMMMOptions
• setQMMMGroupIndices() : gmx::QMMMOptions
• setQuarticAngles() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setQuiet() : gmx::CommandLineModuleManager
• setRadii() : gmx::SurfaceAreaCalculator
• setRbDihedrals() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setReferencePosType() : gmx::SelectionCollection
• setReferenceTemperature() : gmx::ReferenceTemperatureManager
• setReplacement() : gmx::HelpWriterContext
• setRmPBC() : gmx::TrajectoryAnalysisSettings
• setRowCount() : gmx::AbstractAnalysisArrayData
• setScaleFactor() : gmx::DoubleOptionStorage , gmx::FloatOptionStorage , gmx::DoubleOptionInfo , gmx::FloatOptionInfo
• setSearchPathFromEnv() : gmx::DataFileFinder
• setSecondaryStructureType() : gmx::analysismodules::anonymous_namespace{dssp.cpp}::SecondaryStructuresData
• setSelectionCollection() : gmx::AnalysisDataPlotSettings
• setSelectionFlag() : gmx::SelectionOptionStorage
• setSelectionOptionValues() : gmx::test::ModuleSelection
• setSettings() : gmx::AbstractPlotModule
• setShowHidden() : gmx::CommandLineHelpContext , gmx::CommandLineHelpModule , gmx::anonymous_namespace{cmdlinehelpwriter.cpp}::OptionsFilter
• setSignal() : gmx::CheckpointHandler , gmx::ResetHandler , gmx::StopHandler
• setSignals() : gmx::SimulationSignaller
• setSimulationTimeStep() : gmx::ColvarsSimulationsParameters , gmx::anonymous_namespace{densityfitting.cpp}::DensityFittingSimulationParameterSetup
• setSingleModule() : gmx::CommandLineModuleManager
• setSizes() : gmx::DomdecZones
• SetStartTime() : gmx::SetStartTime
• setStartTime() : gmx::test::SetBothTimeTest , gmx::test::SetStartTimeTest
• setStepData() : gmx::test::anonymous_namespace{energyoutput.cpp}::EnergyOutputTest
• setStoreData() : gmx::EnergyTerm
• setStoreIsSet() : gmx::AbstractOption
• setSubtitle() : gmx::AbstractPlotModule
• setTargetConstantWeight() : gmx::PointState
• setTargetToZero() : gmx::PointState
• setTestSimulationDatabaseDirectory() : gmx::test::TestFileManager
• setTholePolarization() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setTimeStep() : gmx::test::SetBothTimeTest , gmx::test::SetTimeStepTest
• SetTimeStep() : gmx::SetTimeStep
• setTimeUnit() : gmx::AnalysisDataPlotSettings , gmx::TimeUnitManager , gmx::TimeUnitBehavior
• setTimeUnitFromEnvironment() : gmx::TimeUnitBehavior
• setTimeUnitStore() : gmx::TimeUnitBehavior
• settings : PmeGpu , gmx::anonymous_namespace{helpwritercontext.cpp}::IWrapper , gmx::anonymous_namespace{helpwritercontext.cpp}::WrapperToString , gmx::anonymous_namespace{helpwritercontext.cpp}::WrapperToVector , gmx::AbstractAverageHistogram , gmx::AnalysisDataSimpleHistogramModule , gmx::AnalysisDataWeightedHistogramModule , gmx::AnalysisDataBinAverageModule , gmx::TextLineWrapper
• settings_ : gmx::internal::BasicHistogramImpl
• setTitle() : gmx::AbstractPlotModule
• settle : t_iparams
• SettleData() : gmx::SettleData
• SettleGpu() : gmx::SettleGpu
• SettleTest() : gmx::test::anonymous_namespace{settle.cpp}::SettleTest
• setTolerance() : gmx::test::anonymous_namespace{splinetable.cpp}::SplineTableTest< T >
• setTopology() : gmx::ColvarsSimulationsParameters , gmx::ITopologyHolderClient , gmx::PositionCalculationCollection , gmx::test::AbstractTrajectoryAnalysisModuleTestFixture , gmx::SelectionCollection
• setTopologyExclusions() : gmx::AnalysisNeighborhood
• setTrajectory() : gmx::test::AbstractTrajectoryAnalysisModuleTestFixture
• setTrimLeadingWhiteSpace() : gmx::TextReader
• setTrimTrailingComment() : gmx::TextReader
• setTrimTrailingWhiteSpace() : gmx::TextReader
• setType() : PreprocessingAtomTypes
• setUlpTol() : gmx::test::SimdBaseTest
• setUlpTolSingleAccuracy() : gmx::test::SimdBaseTest
• setUmbrellaGridpointToGridpoint() : gmx::BiasState , gmx::CoordState
• setup() : ListedForces , gmx::DomDecHelper , gmx::ISignaller , gmx::PmeLoadBalanceHelper , gmx::NeighborSearchSignaller , gmx::LastStepSignaller , gmx::LoggingSignaller , gmx::TrajectorySignaller , gmx::EnergySignaller , gmx::StatePropagatorData
• SetUp() : gmx::test::anonymous_namespace{shake.cpp}::ShakeTest
• setupArrayData() : gmx::test::AnalysisDataTestFixture
• setupDataObject() : gmx::test::AnalysisDataTestFixture
• setupFepThreadedForceBuffer() : gmx::FreeEnergyDispatch
• setupGpuShortRangeWork() : gmx::nonbonded_verlet_t
• setupGrompp() : gmx::test::MimicTest , gmx::test::BondedInteractionsTest
• setupMdrun() : gmx::test::BondedInteractionsTest
• setupReduction() : gmx::ThreadedForceBuffer< ForceBufferElementType >
• setupRerun() : gmx::test::MimicTest
• SetUpTestSuite() : anonymous_namespace{domain_decomposition.cpp}::DomDecSpecialCasesTest , gmx::test::MdrunTestFixtureBase , gmx::test::anonymous_namespace{pmetest.cpp}::PmeTest
• setUreyBradley() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setUsedGraphLastStep() : gmx::MdGpuGraph::Impl
• setValue() : gmx::AnalysisDataStorageFrame , gmx::KeyValueTreeValueBuilder , gmx::AnalysisDataValue , gmx::AnalysisDataStorageFrame , gmx::AnalysisDataValue
• setValueCount() : gmx::AbstractOption , gmx::SelectionOptionInfo
• setVector() : gmx::AbstractOption
• SetVelocities() : gmx::SetVelocities
• setVelocityScaling() : gmx::MttkPropagatorConnection
• setVirtualSites() : gmx::ThreadingInfo , gmx::VirtualSitesHandler , gmx::VirtualSitesHandler::Impl
• setWarninp() : gmx::QMMMOptions
• setWaterPolarization() : gmx::test::anonymous_namespace{bonded.cpp}::iListInput
• setWriteMask() : gmx::AnalysisDataVectorPlotModule
• setWriteNorm() : gmx::AnalysisDataVectorPlotModule
• setWriteX() : gmx::AnalysisDataVectorPlotModule
• setWriteY() : gmx::AnalysisDataVectorPlotModule
• setWriteZ() : gmx::AnalysisDataVectorPlotModule
• setXAxis() : gmx::AbstractAnalysisArrayData
• setXAxisIsTime() : gmx::AbstractPlotModule
• setXAxisValue() : gmx::AbstractAnalysisArrayData
• setXFormat() : gmx::AbstractPlotModule
• setXLabel() : gmx::AbstractPlotModule
• setXYMode() : gmx::AnalysisNeighborhood
• setYFormat() : gmx::AbstractPlotModule
• setYLabel() : gmx::AbstractPlotModule
• setZero() : gmx::GaussTransform3D
• sfDepenOnQ_ : gmx::ComputeDebyeScattering
• sh_ewald : gmx::NBParamGpu , gmx::cl_nbparam_params
• sh_lj_ewald : gmx::NBParamGpu , gmx::cl_nbparam_params
• shareBiasMultisim() : gmx::AwhParams
• shared : gmx::HardwareTopology::Cache
• sharedMemorySize : KernelLaunchConfig
• SharedState() : gmx::HelpWriterContext::Impl::SharedState
• shellCompletionWriter() : gmx::CommandLineHelpContext
• shift : gmx::nbnxn_ci_t , gmx::nbnxn_sci_t , gmx::DomdecZones
• shift_vec : gmx::nbnxn_atomdata_t
• shiftForces() : gmx::ForceWithShiftForces , ForceHelperBuffers , gmx::ThreadForceBuffer< ForceBufferElementType > , gmx::ForceWithShiftForces
• shiftVec : gmx::NBAtomDataGpu
• shiftVecUploaded : gmx::NBAtomDataGpu
• shortDescription : gmx::ConvertTprInfo , gmx::NonbondedBenchmarkInfo , gmx::ICommandLineModule , gmx::anonymous_namespace{cmdlinemodulemanager.cpp}::CMainCommandLineModule , gmx::test::MockModule , anonymous_namespace{legacymodules.cpp}::ObsoleteToolModule , gmx::CommandLineHelpModule
• shouldBackup() : gmx::CommandLineCommonOptionsHolder
• shouldBeQuiet() : gmx::CommandLineCommonOptionsHolder
• shouldContinueComparing() : gmx::test::anonymous_namespace{exactcontinuation.cpp}::ContinuationFramePairManager< FrameReader >
• shouldIgnore() : gmx::test::TestReferenceChecker::Impl
• shouldIgnoreActualModule() : gmx::CommandLineCommonOptionsHolder
• shouldNotifyImmediately() : gmx::internal::AnalysisDataStorageImpl
• shouldShowHelp() : gmx::CommandLineCommonOptionsHolder
• shouldShowHidden() : gmx::CommandLineCommonOptionsHolder
• showHidden() : gmx::CommandLineHelpContext
• shrinkSimplexPointsExceptBest() : gmx::NelderMeadSimplex
• sig : gmx::SimulationSignal
• sigma : gmx::analysismodules::anonymous_namespace{msd.cpp}::MsdGroupData , t_UmbrellaWindow
• sigma3A : t_mdatoms
• sigma3B : t_mdatoms
• sigma_ : gmx::DensityFittingForce::Impl , gmx::GaussTransform3D::Impl , gmx::GaussianSpreadKernelParameters::Shape , gmx::anonymous_namespace{neldermead.cpp}::NelderMeadParameters
• sigmaA : t_mdatoms
• sigmaB : t_mdatoms
• signal() : gmx::ISignaller , gmx::NeighborSearchSignaller , gmx::LoggingSignaller , gmx::TrajectorySignaller , gmx::EnergySignaller , gmx::LastStepSignaller
• signalInterSim() : gmx::SimulationSignaller
• SignallerBuilder< EnergySignaller > : gmx::EnergySignaller
• SignallerBuilder< LastStepSignaller > : gmx::LastStepSignaller
• SignallerBuilder< LoggingSignaller > : gmx::LoggingSignaller
• SignallerBuilder< NeighborSearchSignaller > : gmx::NeighborSearchSignaller
• SignallerBuilder< TrajectorySignaller > : gmx::TrajectorySignaller
• signals_ : gmx::test::SignalTest
• signalSettingStep() : gmx::FepStateSetting
• signFactor_ : AtomsAdjacencyListElement
• signsDiffer() : gmx::test::FloatingPointDifference
• sigSmoothIact : UmbrellaOptions
• Simd4DBool() : gmx::Simd4DBool
• Simd4Double() : gmx::Simd4Double
• Simd4FBool() : gmx::Simd4FBool
• Simd4Float() : gmx::Simd4Float
• SimdArrayRef() : gmx::internal::SimdArrayRef< T >
• SimdBaseTest() : gmx::test::SimdBaseTest
• SimdDBool() : gmx::SimdDBool
• SimdDIBool() : gmx::SimdDIBool
• SimdDInt32() : gmx::SimdDInt32
• SimdDouble() : gmx::SimdDouble
• SimdFBool() : gmx::SimdFBool
• SimdFIBool() : gmx::SimdFIBool
• SimdFInt32() : gmx::SimdFInt32
• SimdFloat() : gmx::SimdFloat
• simdInternal_ : gmx::Simd4Double , gmx::Simd4DBool , gmx::Simd4FBool , gmx::SimdDouble , gmx::SimdDInt32 , gmx::SimdDIBool , gmx::SimdFloat , gmx::SimdFInt32 , gmx::SimdFBool , gmx::SimdFIBool , gmx::Simd4Float , gmx::SimdDBool
• simdMasks() : gmx::nbnxn_atomdata_t
• simdRealWidth : ScalarDataTypes
• similarity() : gmx::anonymous_namespace{densityfit.cpp}::DensitySimilarityRelativeEntropy , gmx::anonymous_namespace{densityfit.cpp}::DensitySimilarityCrossCorrelation , gmx::DensitySimilarityMeasure , gmx::anonymous_namespace{densityfit.cpp}::DensitySimilarityInnerProduct
• similarityMeasureMethod_ : gmx::DensityFittingParameters
• simulation_part : CheckpointHeaderContents
• SimulationAlgorithmSetupError() : gmx::SimulationAlgorithmSetupError
• simulationComm_ : gmx_multisim_t
• simulationCommunicator_ : gmx::SimulationContext
• SimulationContext() : gmx::SimulationContext
• simulationData() : gmx::ModularSimulatorAlgorithmBuilderHelper
• simulationIndex_ : gmx_multisim_t
• SimulationInputHandle() : gmx::SimulationInputHandle
• SimulationInstabilityError() : gmx::SimulationInstabilityError
• simulationNumber_ : gmx::test::MultiSimTest
• SimulationParticle() : SimulationParticle
• SimulationRunner() : gmx::test::SimulationRunner
• simulationSetupNotifier_ : gmx::MDModulesNotifiers
• SimulationSignal() : gmx::SimulationSignal
• SimulationSignaller() : gmx::SimulationSignaller
• simulationSignals() : gmx::GlobalCommunicationHelper
• simulationTimeStep() : gmx::ColvarsSimulationsParameters , gmx::anonymous_namespace{densityfitting.cpp}::DensityFittingSimulationParameterSetup
• SimulatorBuilder() : gmx::SimulatorBuilder
• SimulatorConfig() : gmx::SimulatorConfig
• SimulatorEnv() : gmx::SimulatorEnv
• SimulatorStateData() : gmx::SimulatorStateData
• singleModule_ : gmx::CommandLineModuleManager::Impl
• Site() : gmx::Site
• sites() : gmx::IRestraintPotential
• size() : gmx::FixedCapacityVector< typename, size_t > , InteractionList , gmx::ArrayRef< typename > , gmx::HardwareTopology::Cache , gmx::ThreadForceBuffer< ForceBufferElementType > , t_ilist , gmx::test::AnalysisDataTestInputPointSet , gmx_sel_mempool_block_t , PreprocessingBondAtomType , InteractionsOfType , gmx::HostInteractionList , gmx::PaddedVector< T, Allocator > , gmx::internal::SimdArrayRef< T > , gmx::KeyValueTreePath , gmx::HashedMap< T > , PreprocessingAtomTypes , gmx::Range< typename > , gmx::ArrayRefWithPadding< typename > , gmx::JClusterList , gmx::PackedJClusterList , gmx::EnumerationArray< EnumType, DataType, ArraySize > , gmx::ListOfLists< typename >
• size_ : gmx::PhysicalNodeCommunicator , gmx::test::MultiSimTest
• size_type : gmx::FixedCapacityVector< typename, size_t > , gmx::ArrayRef< typename > , gmx::internal::SimdArrayRef< T > , gmx::ArrayRefWithPadding< typename >
• sizeOfTprBody : TpxFileHeader
• sizeRequired : gmx::ObservablesReducerBuilder::Impl::Subscription
• sizeRequired_ : gmx::test::anonymous_namespace{observablesreducer.cpp}::Subscriber
• sizes() : gmx::DomdecZones
• skewData_ : gmx::MrcDensityMapHeader
• skipRemainingPairsForTestPosition() : gmx::AnalysisNeighborhoodPairSearch
• skipUnknown() : gmx::CommandLineParser
• skipUpdates() : gmx::BiasParams
• slab_buffer : gmx_enfrotgrp
• slab_center : gmx_enfrotgrp
• slab_center_ref : gmx_enfrotgrp
• slab_data : gmx_enfrotgrp
• slab_first : gmx_enfrotgrp
• slab_first_ref : gmx_enfrotgrp
• slab_innersumvec : gmx_enfrotgrp
• slab_last : gmx_enfrotgrp
• slab_last_ref : gmx_enfrotgrp
• slab_torque_v : gmx_enfrotgrp
• slab_weights : gmx_enfrotgrp
• sliced_extents() : gmx::detail::extents_analyse< R, dynamic_extent, StaticExtents...> , gmx::detail::extents_analyse< R, E0, StaticExtents...> , gmx::extents< StaticExtents >
• slopeOfLinearFit() : gmx::EnergyTerm
• socket : gmx::ImdSession::Impl
• solveCoulombYZX() : PmeSolve
• solveLJYZX() : PmeSolve
• solveMaxWorkGroupSize : PmeGpuProgramImpl
• SolveTestBody() : gmx::test::anonymous_namespace{pmesolvetest.cpp}::SolveTestBody
• sortAtomIds() : InteractionOfType
• sortBuffer : gmx::PairsearchWork , gmx::GridWork
• sorting : gmx::GpuPairlist
• source_ : gmx::test::MockAnalysisDataModule::Impl
• sourceLayoutTreeLike_ : gmx::InstallationPrefixInfo
• spaceGroup_ : gmx::MrcDensityMapHeader
• spacing : gmx::NumericalSplineTableInput , pme_setup_t , gmx::GridAxis
• span : methoddata_insolidangle
• spas : gmx_domdec_specat_comm_t
• spatialData : pull_coord_work_t
• spawnThreads() : gmx::Mdrunner
• SplineAndSpreadTestBody() : gmx::test::anonymous_namespace{pmesplinespreadtest.cpp}::SplineAndSpreadTestBody
• splineCountActive : PmeGpuSpecific
• splineDataSize : PmeGpuSpecific
• splineDataSizeAlloc : PmeGpuSpecific
• splineDerivatives : gmx::test::anonymous_namespace{pmegathertest.cpp}::SplineData
• splineValues : gmx::test::anonymous_namespace{pmegathertest.cpp}::SplineData
• splineValuesCapacity : PmeGpuSpecific
• splineValuesOffset : PmeGpuGridParams , SolveKernelParams
• splineValuesSize : PmeGpuSpecific
• spost_ : gmx::SelectionCollection::Impl
• spread() : gmx::GaussianOn1DLattice
• spreadForces() : gmx::VirtualSitesHandler::Impl , gmx::VirtualSitesHandler
• spreadRange_ : gmx::GaussTransform3D::Impl
• spreadTask : gmx::InterdependentTask
• spreadWidthMultiplesOfSigma_ : gmx::GaussianSpreadKernelParameters::Shape
• spreadWorkGroupSize : PmeGpuProgramImpl
• sqrt_c6A : t_mdatoms
• sqrt_c6B : t_mdatoms
• srcAtomBegin() : gmx::Grid
• srcAtomEnd() : gmx::Grid
• ssize() : gmx::ArrayRef< typename > , gmx::ListOfLists< typename > , gmx::FixedCapacityVector< typename, size_t >
• staging : PmeGpu
• standardDeviation() : gmx::AnalysisDataAverageModule , gmx::EnergyTerm
• standardError() : gmx::TextOutputFile
• standardOutput() : gmx::TextOutputFile , gmx::test::TestFileOutputRedirector , gmx::IFileOutputRedirector , gmx::anonymous_namespace{fileredirector.cpp}::DefaultOutputRedirector
• start : wallcc_t , gmx::nbnxn_cycle_t , gmx::AnalysisHistogramSettingsInitializer , gmx::anonymous_namespace{cmdlinehelpwriter.cpp}::SynopsisFormatter , gmx::OptionsAssigner , gmx::SearchCycleCounting , gmx::internal::OptionSectionImpl
• start_time_stamp : gmx_walltime_accounting
• startAtomOffset : PpRanksSendFInfo
• startContext() : gmx::MessageStringCollector
• startData() : gmx::AnalysisData
• startDataStorage() : gmx::AnalysisDataStorage
• startFormatting() : gmx::TextTableFormatter::Impl::ColumnData
• startFrame() : gmx::internal::AnalysisDataStorageFrameData , gmx::AnalysisDataStorage , gmx::AnalysisDataHandle
• startFrames() : gmx::analysismodules::anonymous_namespace{sasa.cpp}::Sasa , gmx::analysismodules::anonymous_namespace{pairdist.cpp}::PairDistance , gmx::TrajectoryAnalysisModule , gmx::analysismodules::anonymous_namespace{rdf.cpp}::Rdf
• startIndex : gmx::SelectionLocation
• startingBehavior : gmx::anonymous_namespace{handlerestart.cpp}::StartingBehaviorHandler
• startingBehavior_ : gmx::LegacySimulatorData , gmx::SimulatorConfig
• startModuleExport() : gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::IHelpExport , gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::HelpExportReStructuredText , gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::HelpExportCompletion
• startModuleGroupExport() : gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::HelpExportReStructuredText , gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::IHelpExport , gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::HelpExportCompletion
• startOption() : gmx::OptionsAssigner
• startPairSearch() : gmx::AnalysisNeighborhoodSearch
• startParallelDataStorage() : gmx::AnalysisDataStorage
• startRecord() : gmx::MdGpuGraph::Impl
• startReferenceData() : gmx::test::MockAnalysisDataModule::Impl
• startReferenceFrame() : gmx::test::MockAnalysisDataModule::Impl
• startSection() : gmx::RepeatingOptionSectionStorage< T > , gmx::OptionsAssigner , gmx::IOptionSectionStorage , gmx::anonymous_namespace{cmdlinehelpwriter.cpp}::OptionsListFormatter
• startSelfPairSearch() : gmx::AnalysisNeighborhoodSearch
• startSet() : gmx::AbstractOptionStorage
• startSource() : gmx::AbstractOptionStorage
• startTimeValue : gmx::OutputRequirements
• startupInfoFile() : gmx::CommandLineCommonOptionsHolder
• state() : gmx::ExponentialMovingAverage
• State : gmx::AnalysisDataModuleManager::Impl
• state() : gmx::Bias
• state_ : gmx::test::anonymous_namespace{energyoutput.cpp}::EnergyOutputTest , gmx::AnalysisDataModuleManager::Impl , gmx::HelpWriterContext::Impl , gmx::LegacySimulatorData
• stateChanged : gmx::StepWorkload
• stateGlobal_ : gmx::LegacySimulatorData
• StatePointer : gmx::HelpWriterContext::Impl
• StatePropagatorData() : gmx::StatePropagatorData
• stateRead_ : gmx::ColvarsForceProviderState
• static_extent() : gmx::detail::extents_analyse< R, E0, StaticExtents...> , gmx::detail::extents_analyse< R, dynamic_extent, StaticExtents...> , gmx::detail::extents_analyse< 0 > , gmx::basic_mdspan< ElementType, Extents, LayoutPolicy, AccessorPolicy > , gmx::extents< StaticExtents >
• StaticAverageHistogram() : gmx::anonymous_namespace{histogram.cpp}::StaticAverageHistogram
• StaticDataFrameHeaderChecker() : gmx::test::anonymous_namespace{mock_datamodule.cpp}::StaticDataFrameHeaderChecker
• StaticDataPointsChecker() : gmx::test::anonymous_namespace{mock_datamodule.cpp}::StaticDataPointsChecker
• StaticDataPointsStorageChecker() : gmx::test::anonymous_namespace{mock_datamodule.cpp}::StaticDataPointsStorageChecker
• Status : gmx::internal::AnalysisDataStorageFrameData
• status : DeviceInformation
• status_ : gmx::ObservablesReducer::Impl
• statusWriter : gmx_sel_lexer_t
• stddev() : gmx::NormalDistribution< RealType > , gmx::TabulatedNormalDistribution< RealType, tableBits >::param_type , gmx::TabulatedNormalDistribution< RealType, tableBits > , gmx::NormalDistribution< RealType >::param_type
• StdioTestHelper() : gmx::test::StdioTestHelper
• step : gmx_pme_comm_n_box_t , gmx::test::anonymous_namespace{freeenergyparameters.cpp}::FreeEnergyParameterTestParameters , gmx::EnergyAnalysisFrame , CheckpointHeaderContents , gmx::TrajectoryFrame
• step_ : gmx::ForceProviderInput
• stepBegin() : gmx::EnergyTerm
• stepBlockSize() : gmx::TestParticleInsertion
• stepchange : UmbrellaOptions
• stepEnd() : gmx::EnergyTerm
• stepFactor : gmx::MtsLevel
• stepping() : gmx::CpuInfo
• stepsSinceLastCalculation_ : gmx::DensityFittingForceProviderState
• stepsSinceLastCalculationName_ : gmx::DensityFittingForceProviderState
• stepUpdateContrib : UmbrellaOptions
• stop() : gmx::nbnxn_cycle_t , gmx::SearchCycleCounting
• stop_cond : gmx_pme_comm_vir_ene_t
• StopConditionSignal() : gmx::StopConditionSignal
• StopConditionTime() : gmx::StopConditionTime
• StopHandler() : gmx::StopHandler
• stopHandlerBuilder_ : gmx::LegacySimulatorData
• stoppingAfterCurrentStep() : gmx::StopHandler
• storage_ : gmx::internal::OptionSectionImpl , gmx::SelectionOptionManager::Impl::SelectionRequest , gmx::AnalysisData::Impl , gmx::internal::BasicHistogramImpl
• storageImpl() : gmx::internal::AnalysisDataStorageFrameData
• storageInitialized_ : gmx::internal::OptionSectionImpl
• storageLimit_ : gmx::internal::AnalysisDataStorageImpl
• store() : gmx::OptionTemplate< T, U >
• storeAll() : gmx::internal::AnalysisDataStorageImpl
• storeBuilderData() : gmx::ModularSimulatorAlgorithmBuilderHelper
• storeCount() : gmx::OptionTemplate< T, U >
• storeData() : gmx::EnergyTerm
• storeElement() : gmx::ModularSimulatorAlgorithmBuilderHelper
• storeIsSet() : gmx::OptionTemplate< T, U >
• StorePointer : gmx::OptionStorageTemplate< T >
• storeSimulationData() : gmx::ModularSimulatorAlgorithmBuilderHelper
• storeState() : gmx::PointState , gmx::HistogramSize
• storeVector() : gmx::RepeatingOptionSection< T > , gmx::OptionTemplate< T, U >
• stpsz : anonymous_namespace{edsam.cpp}::t_eigvec
• str : gmx::SelectionParserValue
• stream : gmx::PpForceCommManager , gmx::PpCommManager , gmx::DeviceStreamManager , DeviceStream
• stream_ : gmx::TextReader::Impl
• streamIsValid() : gmx::DeviceStreamManager
• streams_ : gmx::DeviceStreamManager::Impl
• stride : methoddata_merge , gmx::basic_mdspan< ElementType, Extents, LayoutPolicy, AccessorPolicy > , t_forcetable , gmx::layout_right::mapping< Extents >
• strides : gmx::PlanSetupData
• StringCompare() : gmx::StringCompare
• StringFormatter() : gmx::StringFormatter
• StringInputStream() : gmx::StringInputStream
• StringKeywordMatchItem() : anonymous_namespace{sm_keywords.cpp}::StringKeywordMatchItem
• StringOption() : gmx::StringOption
• StringOptionInfo() : gmx::StringOptionInfo
• StringOptionStorage : gmx::StringOption , gmx::StringOptionStorage
• StringTable() : StringTable
• StringTableEntry() : StringTableEntry
• stringValue() : gmx::SelectionParserValue
• subArray() : gmx::ArrayRef< typename >
• subblockStart() : BiasOutputSetup
• SubgroupList : gmx::internal::OptionSectionImpl::Group
• subgroups_ : gmx::internal::OptionSectionImpl::Group
• submit() : GridConverter< pmeToFft >
• subscribe() : gmx::BuildMDModulesNotifier<>::NoCallParameter , gmx::MDModulesNotifier< CallParameter, MDModulesNotifierBase >
• Subscriber() : gmx::test::anonymous_namespace{observablesreducer.cpp}::Subscriber
• subscriberIndex_ : gmx::test::anonymous_namespace{observablesreducer.cpp}::Subscriber
• subscribers : gmx::test::anonymous_namespace{observablesreducer.cpp}::ObservablesReducerIntegrationTest::RankData
• subscribeToPreProcessingNotifications() : gmx::anonymous_namespace{qmmm.cpp}::QMMM , gmx::RestraintMDModule , gmx::anonymous_namespace{colvarsMDModule.cpp}::ColvarsMDModule , gmx::IMDModule , gmx::anonymous_namespace{plumedMDModule_stub.cpp}::PlumedMDModule , gmx::MDModules , gmx::anonymous_namespace{colvarsMDModule_stub.cpp}::ColvarsMDModule , gmx::anonymous_namespace{densityfitting.cpp}::DensityFitting , gmx::anonymous_namespace{electricfield.cpp}::ElectricField , gmx::anonymous_namespace{plumedMDModule.cpp}::PlumedMDModule
• subscribeToSimulationSetupNotifications() : gmx::anonymous_namespace{plumedMDModule_stub.cpp}::PlumedMDModule , gmx::anonymous_namespace{qmmm.cpp}::QMMM , gmx::anonymous_namespace{plumedMDModule.cpp}::PlumedMDModule , gmx::anonymous_namespace{densityfitting.cpp}::DensityFitting , gmx::RestraintMDModule , gmx::anonymous_namespace{electricfield.cpp}::ElectricField , gmx::IMDModule , gmx::MDModules , gmx::anonymous_namespace{colvarsMDModule_stub.cpp}::ColvarsMDModule , gmx::anonymous_namespace{colvarsMDModule.cpp}::ColvarsMDModule
• subscriptions_ : gmx::ObservablesReducerBuilder::Impl
• subsections_ : gmx::internal::OptionSectionImpl
• substituteMarkupAndWrapToString() : gmx::HelpWriterContext
• substituteMarkupAndWrapToVector() : gmx::HelpWriterContext
• SubTopicList : gmx::AbstractCompositeHelpTopic::Impl
• SubTopicMap : gmx::AbstractCompositeHelpTopic::Impl
• subTopicMap_ : gmx::AbstractCompositeHelpTopic::Impl
• subTopics_ : gmx::AbstractCompositeHelpTopic::Impl
• sum_dg : df_history_t
• sum_minvar : df_history_t
• sum_UgembU() : gmx::TestParticleInsertion
• sum_variance : df_history_t
• sum_weights : df_history_t
• sumOverBlocksBlockSquareWeight() : gmx::CorrelationBlockData
• sumOverBlocksBlockWeightBlockWeightX : gmx::CorrelationBlockData::CoordData
• sumOverBlocksSquareBlockWeight() : gmx::CorrelationBlockData
• sumSquaredDeviation : gmx::LincsDeviations
• supportedSubGroupSizes : DeviceInformation
• supportLevel() : gmx::HardwareTopology , gmx::CpuInfo
• SupportLevel : gmx::CpuInfo , gmx::HardwareTopology
• SurfaceAreaCalculator() : gmx::SurfaceAreaCalculator
• surfaceDist2_ : gmx::analysismodules::anonymous_namespace{rdf.cpp}::RdfModuleData
• svir_prev : t_state
• swap() : gmx::MultiDimArray< TContainer, Extents, LayoutPolicy > , gmx::ArrayRef< typename > , gmx::PaddedVector< T, Allocator > , gmx::ArrayRefWithPadding< typename >
• swap_ : gmx::LegacySimulatorData
• swap_group() : swap_group
• swapdim : t_swap
• swapHistory : ObservablesHistory
• swapOutWorst() : gmx::NelderMeadSimplex
• SymbolMap : gmx::SelectionParserSymbolTable::Impl
• SymbolPointer : gmx::SelectionParserSymbolTable::Impl
• symbols_ : gmx::SelectionParserSymbolTable::Impl
• SymbolType : gmx::SelectionParserSymbol
• symtab : gmx_ana_selcollection_t
• sync : gmx::PpCommManager
• synchronize() : DeviceStream
• syncNodes() : gmx::ImdSession::Impl
• syncSpreadGridD2H : PmeGpuSpecific
• SynopsisFormatter() : gmx::anonymous_namespace{cmdlinehelpwriter.cpp}::SynopsisFormatter
• syntax : gmx_ana_selmethod_help_t
• systemInfo_ : gmx::DomainDecompositionBuilder::Impl