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• a() : gmx::anonymous_namespace{electricfield.cpp}::ElectricFieldDimension , gmx::UniformIntDistribution< IntType >::param_type , gmx::UniformRealDistribution< RealType >::param_type , gmx::UniformRealDistribution< RealType > , gmx::UniformIntDistribution< IntType >
• absoluteTolerance() : gmx::test::FloatingPointTolerance
• AbstractAnalysisArrayData() : gmx::AbstractAnalysisArrayData
• AbstractAnalysisData() : gmx::AbstractAnalysisData
• AbstractAverageHistogram() : gmx::AbstractAverageHistogram
• AbstractOption() : gmx::AbstractOption
• AbstractOptionSection() : gmx::AbstractOptionSection
• AbstractOptionSectionHandle() : gmx::AbstractOptionSectionHandle
• AbstractOptionStorage() : gmx::AbstractOptionStorage
• AbstractPlotModule() : gmx::AbstractPlotModule
• acceptOptions() : gmx::OptionsIterator , gmx::OptionsModifyingIterator
• acceptSections() : gmx::OptionsIterator , gmx::OptionsModifyingIterator
• access() : gmx::accessor_basic< ElementType >
• accessor() : gmx::basic_mdspan< ElementType, Extents, LayoutPolicy, AccessorPolicy >
• accumulate() : ForeignLambdaTerms
• activate() : gmx::test::TestDevice
• active() : gmx::DensityFittingOptions , gmx::QMMMOptions
• add() : gmx::ModularSimulatorAlgorithmBuilder , gmx::OptionManagerContainer , gmx::RestraintManager::Impl , gmx::test::anonymous_namespace{testoptions.cpp}::TestOptionsRegistry , gmx::LocalAtomSetManager , gmx::GaussTransform3D::Impl , gmx::GaussTransform3D , gmx::MDModules , gmx::SimulatorBuilder
• add_energy() : gmx::ColvarsForceProvider
• addAdapter() : gmx::OutputAdapterContainer
• addAndCheckGuarantee() : gmx::ProcessFrameConversion
• addArray() : gmx::KeyValueTreeObjectBuilder
• addAtomToMask() : gmx::ThreadForceBuffer< ForceBufferElementType >
• addBehavior() : gmx::OptionsBehaviorCollection
• addBlockToCorrelationIntegral() : gmx::CorrelationBlockData
• addBondAtomType() : PreprocessingBondAtomType
• addBondedTaskAssignment() : gmx::MdrunnerBuilder
• addCastConversion() : gmx::OptionValueConverterSimple< OutType >
• addCogs() : gmx::UpdateGroupsCog
• addColumn() : gmx::TextTableFormatter
• addColumnHelpTextBlock() : gmx::TextTableFormatter
• addColumnLine() : gmx::TextTableFormatter
• addColumnModule() : gmx::AbstractAnalysisData
• addConservedEnergyContribution() : gmx::EnergyData
• addConverter() : gmx::OptionValueConverterSimple< OutType >
• addCurrentExceptionAsNested() : gmx::ExceptionInitializer
• addData() : gmx::CorrelationGrid , gmx::CorrelationBlockData , gmx::CorrelationTensor , gmx::analysismodules::anonymous_namespace{dssp.cpp}::DsspStorage , gmx::analysismodules::anonymous_namespace{hbond.cpp}::HbondStorage
• addDefaultFileNameOption() : gmx::FileNameOptionManager
• addDependency() : gmx::GpuForceReduction
• addDomainDecomposition() : gmx::MdrunnerBuilder
• addDummyValue() : anonymous_namespace{abstractoptionstorage.cpp}::MockOptionStorage
• addElectrostatics() : gmx::MdrunnerBuilder
• addEntry() : t_state
• addError() : WarningHandler , gmx::EnergyCalculationFrequencyErrors
• addExistingFile() : gmx::test::TestFileInputRedirector
• addFilenames() : gmx::MdrunnerBuilder
• addForceProvider() : gmx::ForceProviders
• addFrame() : gmx::test::AnalysisDataTestInput , gmx::EnergyTerm
• addFrameConverter() : gmx::ProcessFrameConversion
• addFrameWithValueAndError() : gmx::test::AnalysisDataTestInput
• addFrameWithValues() : gmx::test::AnalysisDataTestInput
• addGroup() : gmx::AbstractOptionSectionHandle , gmx::internal::OptionSectionImpl::Group , gmx::internal::OptionSectionImpl , gmx::analysismodules::anonymous_namespace{select.cpp}::IndexFileWriterModule , gmx::IOptionsContainer , gmx::Options
• addHardwareDetectionResult() : gmx::MdrunnerBuilder
• addHardwareOptions() : gmx::MdrunnerBuilder
• addHelpTopic() : gmx::CommandLineModuleManager , gmx::test::CommandLineModuleManagerTestBase
• addInput() : gmx::MdrunnerBuilder
• addLifetime() : gmx::AnalysisDataLifetimeModule::Impl
• addLink() : gmx::HelpLinks
• addLocalWeightSum() : gmx::PointState
• addLogFile() : gmx::MdrunnerBuilder
• addManager() : gmx::Options
• addMethod() : gmx::SelectionParserSymbolTable
• addModule() : gmx::AnalysisDataModuleManager , gmx::CommandLineModuleManager::Impl , gmx::CommandLineModuleManager , gmx::CommandLineModuleGroup , gmx::CommandLineModuleGroupData , gmx::test::CommandLineModuleManagerTestBase , gmx::AbstractAnalysisData
• addModuleCMain() : gmx::CommandLineModuleManager
• addModuleCMainWithSettings() : gmx::CommandLineModuleManager
• addModuleGroup() : gmx::CommandLineModuleManager
• addModuleWithDescription() : gmx::CommandLineModuleGroup
• addNeighborList() : gmx::MdrunnerBuilder
• addNested() : gmx::ExceptionInitializer
• addNonBonded() : gmx::MdrunnerBuilder
• addNote() : WarningHandler
• addObject() : gmx::KeyValueTreeObjectArrayBuilder , gmx::KeyValueTreeObjectBuilder
• addObjectArray() : gmx::KeyValueTreeObjectBuilder
• addOption() : gmx::test::CommandLine , gmx::IOptionsContainer
• addOptionForSelection() : gmx::test::ModuleSelection
• addOptionImpl() : gmx::internal::OptionSectionImpl::Group , gmx::internal::OptionSectionImpl , gmx::IOptionsContainer
• addOptionsBehavior() : gmx::ICommandLineOptionsModuleSettings
• addOptionsModule() : gmx::test::CommandLineModuleManagerTestBase
• addOutputEnvironment() : gmx::MdrunnerBuilder
• addPartialWeightAndCount() : gmx::PointState
• addPoint() : gmx::EnergyDriftTracker
• addPoints() : gmx::AnalysisDataFrameAverager
• addPointSet() : gmx::internal::AnalysisDataStorageFrameData , gmx::test::AnalysisDataTestInputFrame
• addPointSetWithValueAndError() : gmx::test::AnalysisDataTestInputFrame
• addPointSetWithValues() : gmx::test::AnalysisDataTestInputFrame
• addPositionSymbols() : gmx::SelectionParserSymbolTable::Impl
• addPotential() : gmx::Mdrunner
• addQList() : gmx::ComputeDebyeScattering
• addRawValue() : gmx::KeyValueTreeObjectBuilder
• addReferenceCheckerModule() : gmx::test::AnalysisDataTestFixture
• addRegexToSkip() : gmx::test::FilteringExactTextMatch
• addReplacement() : gmx::HelpWriterContext::Impl
• addReplicaExchange() : gmx::MdrunnerBuilder
• addReservedSymbols() : gmx::SelectionParserSymbolTable::Impl
• addRule() : gmx::IKeyValueTreeTransformRules
• addSection() : gmx::IOptionsContainerWithSections
• addSectionImpl() : gmx::internal::OptionSectionImpl , gmx::IOptionsContainerWithSections
• addSelections() : gmx::SelectionOptionStorage
• addSimulationMethod() : gmx::MdrunnerBuilder
• addStaticCheckerModule() : gmx::test::AnalysisDataTestFixture
• addStaticColumnCheckerModule() : gmx::test::AnalysisDataTestFixture
• addStaticParallelCheckerModule() : gmx::test::AnalysisDataTestFixture
• addStaticStorageCheckerModule() : gmx::test::AnalysisDataTestFixture
• addStopHandlerBuilder() : gmx::MdrunnerBuilder
• addString() : StringTableBuilder
• addSubscriber() : gmx::ObservablesReducerBuilder
• addSubTopic() : gmx::AbstractCompositeHelpTopic
• addSymbol() : gmx::SelectionParserSymbolTable::Impl
• addTargetFile() : gmx::LoggerBuilder
• addTargetStream() : gmx::LoggerBuilder
• addTimeUnitOption() : gmx::TimeUnitBehavior
• addToConstraintVirial() : gmx::EnergyData
• addToForceVirial() : gmx::EnergyData
• addTopic() : gmx::anonymous_namespace{cmdlinehelpmodule.cpp}::RootHelpTopic , gmx::CommandLineHelpModule
• addTopology() : gmx::test::ModuleTest
• addToSpec() : gmx::RestraintManager
• addType() : PreprocessingAtomTypes
• addUniformArray() : gmx::KeyValueTreeObjectBuilder
• addUpdateTaskAssignment() : gmx::MdrunnerBuilder
• addValue() : gmx::AnalysisDataFrameAverager , gmx::test::AnalysisDataTestInputPointSet , gmx::OptionStorageTemplate< T > , gmx::KeyValueTreeUniformArrayBuilder< T > , gmx::KeyValueTreeObjectBuilder
• addValueWithError() : gmx::test::AnalysisDataTestInputPointSet
• addVariable() : gmx::SelectionParserSymbolTable
• addVirialContribution() : gmx::ForceWithVirial
• addVirialTerm() : gmx::ColvarsForceProvider
• addWarning() : WarningHandler
• adjustFromSettings() : gmx::CommandLineCommonOptionsHolder
• adjustInputrecBasedOnModules() : gmx::MDModules
• AffineTransformation() : gmx::AffineTransformation
• AfterFrom() : gmx::KeyValueTreeTransformRuleBuilder::AfterFrom< FromType >
• ai() : InteractionOfType , BondedInteraction , MoleculePatch , VsiteBondedInteraction
• aj() : BondedInteraction , MoleculePatch
• ak() : BondedInteraction , MoleculePatch
• al() : BondedInteraction , MoleculePatch
• alignment() : gmx::HostAllocationPolicy , gmx::AlignedAllocationPolicy , gmx::PageAlignedAllocationPolicy
• allocate() : gmx::Allocator< T, AllocationPolicy >
• allocateComplexGrid() : gmx::Gpu3dFft::Impl
• allocateValues() : gmx::AbstractAnalysisArrayData
• Allocator() : gmx::Allocator< T, AllocationPolicy >
• allowedValues() : gmx::StringOptionStorage , gmx::EnumOptionStorage , gmx::StringOptionInfo , gmx::EnumOptionInfo
• allowEmpty() : gmx::SelectionOption
• allowMissing() : gmx::FileNameOptionStorage , gmx::FileNameOption , gmx::FileNameOptionInfo
• allowMultiple() : gmx::OptionTemplate< T, U >
• allowPositionalArguments() : gmx::CommandLineParser
• allowsOnlyAtoms() : gmx::SelectionOptionStorage
• allPresent() : gmx::AnalysisDataPointSetRef , gmx::AnalysisDataFrameRef
• allSizes() : gmx::UnionFinder , gmx::MappedUnionFinder
• allValuesConsistentlySelected() : gmx::analysismodules::anonymous_namespace{angle.cpp}::AnglePositionIterator
• alpha() : gmx::GammaDistribution< RealType > , gmx::GammaDistribution< RealType >::param_type
• altloc() : PdbAtomEntry
• am() : BondedInteraction
• analyseTopology() : gmx::analysismodules::anonymous_namespace{dssp.cpp}::SecondaryStructures
• AnalysisArrayData() : gmx::AnalysisArrayData
• AnalysisData() : gmx::AnalysisData
• AnalysisDataBinAverageModule() : gmx::AnalysisDataBinAverageModule
• AnalysisDataFrameHeader() : gmx::AnalysisDataFrameHeader
• AnalysisDataFrameLocalData() : gmx::AnalysisDataFrameLocalData< ValueType >
• AnalysisDataFrameLocalDataHandle() : gmx::AnalysisDataFrameLocalDataHandle< ValueType >
• AnalysisDataFrameLocalDataSetHandle() : gmx::AnalysisDataFrameLocalDataSetHandle< ValueType >
• AnalysisDataFrameRef() : gmx::AnalysisDataFrameRef
• AnalysisDataHandle() : gmx::AnalysisDataHandle
• AnalysisDataHandleImpl() : gmx::internal::AnalysisDataHandleImpl
• AnalysisDataParallelOptions() : gmx::AnalysisDataParallelOptions
• AnalysisDataPlotModule() : gmx::AnalysisDataPlotModule
• AnalysisDataPlotSettings() : gmx::AnalysisDataPlotSettings
• AnalysisDataPointSetRef() : gmx::AnalysisDataPointSetRef
• AnalysisDataProxy() : gmx::AnalysisDataProxy
• AnalysisDataSimpleHistogramModule() : gmx::AnalysisDataSimpleHistogramModule
• AnalysisDataStorage() : gmx::AnalysisDataStorage
• AnalysisDataStorageFrameData() : gmx::internal::AnalysisDataStorageFrameData
• AnalysisDataTestInput() : gmx::test::AnalysisDataTestInput
• AnalysisDataValue() : gmx::AnalysisDataValue
• AnalysisDataVectorPlotModule() : gmx::AnalysisDataVectorPlotModule
• AnalysisDataWeightedHistogramModule() : gmx::AnalysisDataWeightedHistogramModule
• AnalysisHistogramSettings() : gmx::AnalysisHistogramSettings
• AnalysisHistogramSettingsInitializer() : gmx::AnalysisHistogramSettingsInitializer
• AnalysisNeighborhood() : gmx::AnalysisNeighborhood
• AnalysisNeighborhoodPair() : gmx::AnalysisNeighborhoodPair
• AnalysisNeighborhoodPairSearch() : gmx::AnalysisNeighborhoodPairSearch
• AnalysisNeighborhoodPositions() : gmx::AnalysisNeighborhoodPositions
• AnalysisNeighborhoodSearch() : gmx::AnalysisNeighborhoodSearch
• analyzeFrame() : AnalysisTemplate , gmx::IEnergyAnalysis , gmx::analysismodules::anonymous_namespace{freevolume.cpp}::FreeVolume , gmx::analysismodules::Msd , gmx::analysismodules::anonymous_namespace{pairdist.cpp}::PairDistance , gmx::analysismodules::anonymous_namespace{rdf.cpp}::Rdf , gmx::analysismodules::anonymous_namespace{sasa.cpp}::Sasa , gmx::TrajectoryAnalysisModule
• AndersenTemperatureCoupling() : gmx::AndersenTemperatureCoupling
• AnglePositionIterator() : gmx::analysismodules::anonymous_namespace{angle.cpp}::AnglePositionIterator
• anisotropy() : PdbAtomEntry
• Any() : gmx::Any
• APIError() : gmx::APIError
• append() : gmx::KeyValueTreePath , gmx::test::CommandLine , gmx::OptionValueStoreNull< T > , gmx::KeyValueTreePath , gmx::MessageStringCollector , gmx::IOptionValueStore< T > , gmx::MessageStringCollector , gmx::internal::EnumIndexStore< EnumType > , gmx::test::CommandLine
• appendBlock() : gmx::RangePartitioning
• appendIf() : gmx::MessageStringCollector
• appendLegend() : gmx::AbstractPlotModule
• appendListOfLists() : gmx::ListOfLists< typename >
• appendPath() : gmx::test::TestReferenceChecker::Impl
• appendText() : gmx::LogEntryWriter
• appendTextFormatted() : gmx::LogEntryWriter
• appendValue() : gmx::OptionsAssigner , gmx::AbstractOptionStorage
• apply() : gmx::SettleGpu , gmx::VRescaleTemperatureCoupling , gmx::NoseHooverTemperatureCoupling , gmx::Constraints , gmx::ITemperatureCouplingImpl , gmx::LincsGpu , gmx::BerendsenTemperatureCoupling
• applyBiasForcesAndUpdateBias() : gmx::Awh
• applyConstraint() : anonymous_namespace{resourcedivision.cpp}::SingleRankChecker
• applyLeapFrog() : gmx::NoseHooverTemperatureCoupling
• applyModule() : gmx::AnalysisDataModuleManager , gmx::AbstractAnalysisData
• applyNhc() : gmx::NoseHooverGroup , gmx::NoseHooverChainsData
• areForcesRequested() : gmx::SelectionCollection::Impl
• arg() : gmx::test::CommandLine
• argc() : gmx::test::CommandLine
• argumentOf() : gmx::test::CommandLine
• argv() : gmx::test::CommandLine
• ArrayRef() : gmx::ArrayRef< typename >
• arrayRefFromArray() : gmx::ArrayRef< typename >
• ArrayRefWithPadding() : gmx::ArrayRefWithPadding< typename >
• arrayRefWithPadding() : gmx::PaddedVector< T, Allocator >
• as_vec() : gmx::BasicVector< ValueType >
• asAbsolute() : gmx::test::FloatingPointDifference
• asConstView() : gmx::MultiDimArray< TContainer, Extents, LayoutPolicy >
• asParagraph() : gmx::LogEntryWriter
• assign() : anonymous_namespace{evaluate.cpp}::SelelemTemporaryValueAssigner
• assignOptionsToModules() : gmx::MDModules
• asUlps() : gmx::test::FloatingPointDifference
• asView() : gmx::MultiDimArray< TContainer, Extents, LayoutPolicy >
• at() : StringTable , gmx::FixedCapacityVector< typename, size_t > , gmx_ga2la_t , gmx::EnergyFrame , gmx::ListOfLists< typename > , gmx::FixedCapacityVector< typename, size_t > , gmx::ArrayRef< typename >
• atom() : AtomProxy
• atom2constraints_moltype() : gmx::Constraints
• atom2settle_moltype() : gmx::Constraints
• atomChargeFromAtomType() : PreprocessingAtomTypes
• atomCharges() : gmx::QMMMTopologyPreprocessor
• atomCount() : gmx::Selection , gmx::SelectionPosition
• atomdata_add_nbat_f_to_f() : nonbonded_verlet_t
• atomdata_init_copy_x_to_nbat_x_gpu() : nonbonded_verlet_t
• AtomDistribution() : AtomDistribution
• atomIndexEnd() : Nbnxm::Grid
• atomIndices() : gmx::SelectionPosition , Nbnxm::GridSet , gmx::Selection
• atomIsPerturbed() : Nbnxm::Grid
• AtomIterator() : AtomIterator
• atomMassFromAtomType() : PreprocessingAtomTypes
• atomName() : AtomProxy , PdbAtomEntry
• atomNameFromAtomType() : PreprocessingAtomTypes
• atomNameFromBondAtomType() : PreprocessingBondAtomType
• atomNonBondedParamFromAtomType() : PreprocessingAtomTypes
• atomnumber() : SimulationParticle
• atomNumberFromAtomType() : PreprocessingAtomTypes
• atomNumberFromElement() : AtomProperties
• atomNumberInMol() : AtomProxy
• atomNumbers() : gmx::QMMMTopologyPreprocessor
• AtomPair() : anonymous_namespace{lincs.cpp}::AtomPair
• atomParticleTypeFromAtomType() : PreprocessingAtomTypes
• AtomProperties() : AtomProperties
• AtomProxy() : AtomProxy
• AtomRange() : AtomRange
• atoms() : InteractionOfType , gmx::TopologyInformation
• atomSerialNumber() : PdbAtomEntry
• atomToCluster() : Nbnxm::Grid
• atomTypeFromName() : PreprocessingAtomTypes
• average() : gmx::AnalysisDataAverageModule , gmx::EnergyTerm , gmx::AnalysisDataFrameAverager
• averageMCycles() : nbnxn_cycle_t
• averageMsds() : gmx::analysismodules::anonymous_namespace{msd.cpp}::MsdData
• averager() : gmx::AnalysisDataWeightedHistogramModule , gmx::AnalysisDataSimpleHistogramModule
• Awh() : gmx::Awh
• awhBiasParams() : gmx::AwhParams
• AwhEnergyBlock() : gmx::AwhEnergyBlock
• awhOutputFile() : BiasOutputSetup
• AwhParams() : gmx::AwhParams
• awhParams() : gmx::test::BiasTest
• AwhParams() : gmx::AwhParams
• AwhReader() : AwhReader
• AwhTestParameters() : gmx::test::AwhTestParameters
• axis() : gmx::BiasGrid