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- s -
sampleCount() :
gmx::AnalysisDataAverageModule
saveEdsamPointer() :
gmx::Constraints
scaleAll() :
gmx::AbstractAverageHistogram
scaleAllByVector() :
gmx::AbstractAverageHistogram
scaleBox() :
EwaldBoxZScaler
scaleOperationOnly() :
gmx::TranslateAndScale
scaleSingle() :
gmx::AbstractAverageHistogram
scopedTransform() :
gmx::IKeyValueTreeTransformRules
seed() :
gmx::ThreeFry2x64General< rounds, internalCounterBits >
select_on_container_copy_construction() :
gmx::HostAllocationPolicy
selectDataSet() :
gmx::AnalysisDataHandle
,
gmx::AnalysisDataStorageFrame
selected() :
gmx::SelectionPosition
Selection() :
gmx::Selection
SelectionCollection() :
gmx::SelectionCollection
selectionCollection() :
gmx::AnalysisDataPlotSettings
SelectionFileOption() :
gmx::SelectionFileOption
SelectionFileOptionInfo() :
gmx::SelectionFileOptionInfo
SelectionOption() :
gmx::SelectionOption
SelectionOptionBehavior() :
gmx::SelectionOptionBehavior
SelectionOptionInfo() :
gmx::SelectionOptionInfo
SelectionOptionManager() :
gmx::SelectionOptionManager
SelectionPosition() :
gmx::SelectionPosition
selectionText() :
gmx::Selection
SelectionTopologyProperties() :
gmx::SelectionTopologyProperties
selectSingleFromArray() :
gmx::AnalysisNeighborhoodPositions
sendCoordinatesToPmeCudaDirect() :
gmx::PmePpCommGpu
sendForceBufferAddressToPpRanks() :
gmx::PmeForceSenderGpu
sendFToPpCudaDirect() :
gmx::PmeForceSenderGpu
serialize() :
gmx::WriteCheckpointDataHolder
,
StringTableEntry
serializeStringTable() :
StringTable
set() :
gmx::FlagsTemplate< FlagType >
setAcceptBooleanNoPrefix() :
gmx::OptionsAssigner
setAllBlocksSizeOne() :
gmx::RangePartitioning
setAnyValue() :
gmx::KeyValueTreeValueBuilder
setAtomProperties() :
nonbonded_verlet_t
setAtomProperty() :
AtomProperties
SetAtoms() :
gmx::SetAtoms
setAverageDataSets() :
gmx::AnalysisDataAverageModule
SetBox() :
gmx::SetBox
setBugText() :
gmx::ICommandLineOptionsModuleSettings
setColumnCount() :
gmx::AbstractAnalysisData
,
gmx::AnalysisData
,
gmx::AbstractAnalysisArrayData
,
gmx::test::AnalysisDataTestInput
setColumnFirstLineOffset() :
gmx::TextTableFormatter
setConstraints() :
gmx::Constraints
,
gmx::SettleData
setContinuationChar() :
gmx::TextLineWrapperSettings
setCumulative() :
gmx::AnalysisDataLifetimeModule
setCutoff() :
gmx::AnalysisNeighborhood
setDataSetCount() :
gmx::AbstractAnalysisData
,
gmx::AnalysisData
setDebugLevel() :
gmx::SelectionCollection
setDefaultNiceLevel() :
gmx::CommandLineModuleSettings
setDefaultTolerance() :
gmx::test::TestReferenceChecker
,
gmx::test::CommandLineTestBase
setDefaultValue() :
gmx::OptionStorageTemplate< T >
setDefaultValueIfSet() :
gmx::OptionStorageTemplate< T >
setDescription() :
gmx::AbstractOption
setDisplayName() :
gmx::CommandLineProgramContext
setDynamicMask() :
gmx::SelectionOptionInfo
setError() :
gmx::AnalysisDataValue
setErrorsAsSeparateColumn() :
gmx::AbstractPlotModule
setEvaluateForces() :
gmx::Selection
,
gmx::SelectionOptionInfo
setEvaluateVelocities() :
gmx::Selection
,
gmx::SelectionOptionInfo
setFileName() :
gmx::AbstractPlotModule
setFirstColumnIndent() :
gmx::TextTableFormatter
setFirstLineIndent() :
gmx::TextLineWrapperSettings
setFlag() :
gmx::AbstractOption
,
gmx::AbstractOptionStorage
,
gmx::TrajectoryAnalysisSettings
setFlags() :
gmx::TrajectoryAnalysisSettings
setFoldLastColumnToNextLine() :
gmx::TextTableFormatter
setForceParameter() :
InteractionOfType
SetForces() :
gmx::SetForces
setFrameFlags() :
gmx::TrajectoryAnalysisSettings
setGlobalOutputTempDirectory() :
gmx::test::TestFileManager
setHelpText() :
gmx::CommandLineHelpWriter
,
gmx::ICommandLineOptionsModuleSettings
,
gmx::TrajectoryAnalysisSettings
setIndent() :
gmx::TextLineWrapperSettings
setIndexGroups() :
gmx::SelectionCollection
setIndicesInDomainDecomposition() :
gmx::LocalAtomSetManager
setInfo() :
gmx::GromacsException
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
setKeepFinalSpaces() :
gmx::TextLineWrapperSettings
setKnownIssues() :
gmx::CommandLineHelpWriter
setLastNewline() :
gmx::test::InteractiveTestHelper
setLegend() :
gmx::AbstractPlotModule
setLineLength() :
gmx::TextLineWrapperSettings
setLocalAtomOrder() :
nonbonded_verlet_t
,
PairSearch
setMaxTime() :
gmx::AnalysisDataDisplacementModule
setMaxValueCount() :
gmx::AbstractOptionStorage
setMinValueCount() :
gmx::AbstractOptionStorage
setMode() :
gmx::AnalysisNeighborhood
setModifiableInputFile() :
gmx::test::CommandLineTestBase
setModuleDisplayName() :
gmx::CommandLineHelpContext
setModuleFlag() :
gmx::test::FlagTest
setMSDHistogram() :
gmx::AnalysisDataDisplacementModule
setMultipoint() :
gmx::AbstractAnalysisData
,
gmx::AnalysisData
setNumAtoms() :
gmx::Update
setOmitX() :
gmx::AbstractPlotModule
setOnlyAtoms() :
gmx::SelectionOptionInfo
setOnlyStatic() :
gmx::SelectionOptionInfo
setOptionsModuleSettings() :
gmx::TrajectoryAnalysisSettings
setOriginalId() :
gmx::Selection
setOutputFile() :
gmx::test::CommandLineTestHelper
,
gmx::test::CommandLineTestBase
setOutputPosType() :
gmx::SelectionCollection
setOutputRedirector() :
gmx::CommandLineModuleManager
setOutputTempDirectory() :
gmx::test::TestFileManager
setPBC() :
gmx::TrajectoryAnalysisSettings
setPlainOutput() :
gmx::AbstractPlotModule
setPoint() :
gmx::AnalysisDataHandle
setPoints() :
gmx::AnalysisDataHandle
SetPrecision() :
gmx::SetPrecision
setQuiet() :
gmx::CommandLineModuleManager
setReferencePosType() :
gmx::SelectionCollection
setReplacement() :
gmx::HelpWriterContext
setRmPBC() :
gmx::TrajectoryAnalysisSettings
setRowCount() :
gmx::AbstractAnalysisArrayData
setScaleFactor() :
gmx::DoubleOptionInfo
,
gmx::FloatOptionInfo
setSearchPathFromEnv() :
gmx::DataFileFinder
setSelectionCollection() :
gmx::AnalysisDataPlotSettings
setSelectionOptionValues() :
gmx::test::ModuleSelection
setSettings() :
gmx::AbstractPlotModule
setShowHidden() :
gmx::CommandLineHelpContext
setSignal() :
gmx::CheckpointHandler
,
gmx::ResetHandler
,
gmx::StopHandler
setSignals() :
gmx::SimulationSignaller
setSingleModule() :
gmx::CommandLineModuleManager
SetStartTime() :
gmx::SetStartTime
setStoreIsSet() :
gmx::AbstractOption
setSubtitle() :
gmx::AbstractPlotModule
setTestSimulationDatabaseDirectory() :
gmx::test::TestFileManager
SetTimeStep() :
gmx::SetTimeStep
setTimeUnit() :
gmx::AnalysisDataPlotSettings
,
gmx::TimeUnitManager
,
gmx::TimeUnitBehavior
setTimeUnitFromEnvironment() :
gmx::TimeUnitBehavior
setTimeUnitStore() :
gmx::TimeUnitBehavior
settings() :
gmx::AbstractAverageHistogram
,
gmx::AnalysisDataSimpleHistogramModule
,
gmx::AnalysisDataWeightedHistogramModule
,
gmx::AnalysisDataBinAverageModule
,
gmx::TextLineWrapper
setTitle() :
gmx::AbstractPlotModule
SettleData() :
gmx::SettleData
setTopology() :
gmx::SelectionCollection
setTopologyExclusions() :
gmx::AnalysisNeighborhood
setTrimLeadingWhiteSpace() :
gmx::TextReader
setTrimTrailingComment() :
gmx::TextReader
setTrimTrailingWhiteSpace() :
gmx::TextReader
setType() :
PreprocessingAtomTypes
setup() :
ListedForces
setupArrayData() :
gmx::test::AnalysisDataTestFixture
setupDataObject() :
gmx::test::AnalysisDataTestFixture
setupGpuShortRangeWork() :
nonbonded_verlet_t
setValue() :
gmx::AnalysisDataStorageFrame
,
gmx::AnalysisDataValue
,
gmx::AnalysisDataStorageFrame
,
gmx::KeyValueTreeValueBuilder
setValueCount() :
gmx::AbstractOption
,
gmx::SelectionOptionInfo
setVector() :
gmx::AbstractOption
SetVelocities() :
gmx::SetVelocities
setVirtualSites() :
gmx::VirtualSitesHandler
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
shellCompletionWriter() :
gmx::CommandLineHelpContext
shiftForces() :
gmx::ForceWithShiftForces
,
ForceHelperBuffers
shortDescription() :
gmx::ICommandLineModule
showHidden() :
gmx::CommandLineHelpContext
signalInterSim() :
gmx::SimulationSignaller
signsDiffer() :
gmx::test::FloatingPointDifference
Simd4DBool() :
gmx::Simd4DBool
Simd4Double() :
gmx::Simd4Double
Simd4FBool() :
gmx::Simd4FBool
Simd4Float() :
gmx::Simd4Float
SimdDBool() :
gmx::SimdDBool
SimdDIBool() :
gmx::SimdDIBool
SimdDInt32() :
gmx::SimdDInt32
SimdDouble() :
gmx::SimdDouble
SimdFBool() :
gmx::SimdFBool
SimdFIBool() :
gmx::SimdFIBool
SimdFInt32() :
gmx::SimdFInt32
SimdFloat() :
gmx::SimdFloat
similarity() :
gmx::DensitySimilarityMeasure
SimulationAlgorithmSetupError() :
gmx::SimulationAlgorithmSetupError
SimulationContext() :
gmx::SimulationContext
SimulationInstabilityError() :
gmx::SimulationInstabilityError
SimulationSignal() :
gmx::SimulationSignal
SimulationSignaller() :
gmx::SimulationSignaller
SimulatorConfig() :
gmx::SimulatorConfig
SimulatorEnv() :
gmx::SimulatorEnv
SimulatorStateData() :
gmx::SimulatorStateData
Site() :
gmx::Site
sites() :
gmx::IRestraintPotential
size() :
gmx::ArrayRef< typename >
,
gmx::Range< typename >
,
gmx::HashedMap< T >
,
PreprocessingAtomTypes
,
gmx::ArrayRefWithPadding< typename >
,
gmx::FixedCapacityVector< T, capacity >
,
gmx::ListOfLists< typename >
,
gmx::test::AnalysisDataTestInputPointSet
,
gmx::EnumerationArray< EnumType, DataType, ArraySize >
,
InteractionsOfType
,
gmx::KeyValueTreePath
,
gmx::PaddedVector< T, Allocator >
,
PreprocessingBondAtomType
skipRemainingPairsForTestPosition() :
gmx::AnalysisNeighborhoodPairSearch
skipUnknown() :
gmx::CommandLineParser
sliced_extents() :
gmx::extents< StaticExtents >
,
gmx::detail::extents_analyse< R, dynamic_extent, StaticExtents...>
,
gmx::detail::extents_analyse< R, E0, StaticExtents...>
sortAtomIds() :
InteractionOfType
spawnThreads() :
gmx::Mdrunner
spreadForces() :
gmx::VirtualSitesHandler
ssize() :
gmx::ArrayRef< typename >
,
gmx::FixedCapacityVector< T, capacity >
,
gmx::ListOfLists< typename >
standardDeviation() :
gmx::AnalysisDataAverageModule
standardError() :
gmx::TextOutputFile
standardOutput() :
gmx::TextOutputFile
,
gmx::test::TestFileOutputRedirector
,
gmx::IFileOutputRedirector
start() :
gmx::AnalysisHistogramSettingsInitializer
,
nbnxn_cycle_t
,
gmx::OptionsAssigner
startContext() :
gmx::MessageStringCollector
startData() :
gmx::AnalysisData
startDataStorage() :
gmx::AnalysisDataStorage
startFrame() :
gmx::AnalysisDataStorage
,
gmx::AnalysisDataHandle
,
gmx::AnalysisDataStorage
startFrames() :
gmx::TrajectoryAnalysisModule
startOption() :
gmx::OptionsAssigner
startPairSearch() :
gmx::AnalysisNeighborhoodSearch
startParallelDataStorage() :
gmx::AnalysisDataStorage
startSection() :
gmx::OptionsAssigner
startSelfPairSearch() :
gmx::AnalysisNeighborhoodSearch
startSet() :
gmx::AbstractOptionStorage
startSource() :
gmx::AbstractOptionStorage
state() :
gmx::ExponentialMovingAverage
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 >
stddev() :
gmx::NormalDistribution< RealType >::param_type
,
gmx::NormalDistribution< RealType >
,
gmx::TabulatedNormalDistribution< RealType, tableBits >::param_type
,
gmx::TabulatedNormalDistribution< RealType, tableBits >
StdioTestHelper() :
gmx::test::StdioTestHelper
stepping() :
gmx::CpuInfo
stop() :
nbnxn_cycle_t
StopConditionSignal() :
gmx::StopConditionSignal
StopConditionTime() :
gmx::StopConditionTime
StopHandler() :
gmx::StopHandler
stoppingAfterCurrentStep() :
gmx::StopHandler
store() :
gmx::OptionTemplate< T, U >
storeCount() :
gmx::OptionTemplate< T, U >
storeIsSet() :
gmx::OptionTemplate< T, U >
storeVector() :
gmx::OptionTemplate< T, U >
,
gmx::RepeatingOptionSection< T >
stream() :
DeviceStream
,
gmx::DeviceStreamManager
streamIsValid() :
gmx::DeviceStreamManager
stride() :
gmx::layout_right::mapping< Extents >
,
gmx::basic_mdspan< ElementType, Extents, LayoutPolicy, AccessorPolicy >
StringCompare() :
gmx::StringCompare
StringFormatter() :
gmx::StringFormatter
StringInputStream() :
gmx::StringInputStream
StringOption() :
gmx::StringOption
StringOptionInfo() :
gmx::StringOptionInfo
StringTable() :
StringTable
StringTableEntry() :
StringTableEntry
subArray() :
gmx::ArrayRef< typename >
subRange() :
gmx::RangePartitioning
subscribe() :
gmx::MdModuleNotification< CallParameter, MdModuleNotificationBase >
subscribeToPreProcessingNotifications() :
gmx::MDModules
,
gmx::RestraintMDModule
,
gmx::IMDModule
subscribeToSimulationSetupNotifications() :
gmx::RestraintMDModule
,
gmx::MDModules
,
gmx::IMDModule
substituteMarkupAndWrapToString() :
gmx::HelpWriterContext
substituteMarkupAndWrapToVector() :
gmx::HelpWriterContext
supportLevel() :
gmx::HardwareTopology
,
gmx::CpuInfo
swap() :
gmx::ArrayRef< typename >
,
gmx::ArrayRefWithPadding< typename >
,
gmx::MultiDimArray< TContainer, Extents, LayoutPolicy >
,
gmx::PaddedVector< T, Allocator >
synchronize() :
DeviceStream
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