Here is a list of all documented class members with links to the class documentation for each member:
- p -
- p
: gmx_ana_poscalc_t
, gmx_ana_selvalue_t
, t_partition
, t_methoddata_kweval
, t_methoddata_distance
, t_methoddata_permute
- p1
: t_methoddata_merge
- p2
: t_methoddata_merge
- packedBoundingBoxes()
: Nbnxm::Grid
- paddedArrayRef()
: gmx::ArrayRefWithPadding< T >
- paddedConstArrayRef()
: gmx::ArrayRefWithPadding< T >
- paddedNumAtomsInColumn()
: Nbnxm::Grid
- paddedSize()
: gmx::PaddedVector< T, Allocator >
- PaddedVector()
: gmx::PaddedVector< T, Allocator >
- padding
: Nbnxm::BoundingBox::Corner
- PairDistanceModuleData()
: gmx::analysismodules::anonymous_namespace{pairdist.cpp}::PairDistanceModuleData
- pairlistCutoff
: Nbnxm::KernelBenchOptions
- pairlistInnerRadius()
: nonbonded_verlet_t
- pairlistIsSimple()
: nonbonded_verlet_t
- pairlistOuterRadius()
: nonbonded_verlet_t
- PairlistParams()
: PairlistParams
- PairlistSet()
: PairlistSet
- pairlistSets()
: nonbonded_verlet_t
- pairlistSets_
: nonbonded_verlet_t
- pairlistType
: PairlistParams
- pairSearch_
: nonbonded_verlet_t
- paragraphBreak()
: gmx::HelpWriterContext
- ParallelConsistencyError()
: gmx::ParallelConsistencyError
- parallelDataStarted()
: gmx::IAnalysisDataModule
, gmx::AnalysisDataModuleParallel
, gmx::AnalysisDataProxy
, gmx::AnalysisDataSimpleHistogramModule
, gmx::AnalysisDataWeightedHistogramModule
- parallelizationFactor()
: gmx::AnalysisDataParallelOptions
- parallelSelection()
: gmx::TrajectoryAnalysisModuleData
- parallelSelections()
: gmx::TrajectoryAnalysisModuleData
- param
: gmx::SelectionTreeElement
, gmx_ana_selmethod_t
, gmx::ExponentialDistribution< RealType >
, gmx::GammaDistribution< RealType >
, gmx::NormalDistribution< RealType >
, gmx::TabulatedNormalDistribution< RealType, tableBits >
, gmx::UniformIntDistribution< IntType >
, gmx::UniformRealDistribution< RealType >
- param_type()
: gmx::ExponentialDistribution< RealType >::param_type
, gmx::GammaDistribution< RealType >::param_type
, gmx::NormalDistribution< RealType >::param_type
, gmx::TabulatedNormalDistribution< RealType, tableBits >::param_type
, gmx::UniformIntDistribution< IntType >::param_type
, gmx::UniformRealDistribution< RealType >::param_type
- params
: pull_group_work_t
, gmx::Bias
- parent_
: gmx::internal::OptionSectionImpl::Group
- pargsToOptions()
: gmx::anonymous_namespace{pargs.cpp}::OptionsAdapter
- ParrinelloRahmanBarostat()
: gmx::ParrinelloRahmanBarostat
- parse()
: gmx::CommandLineParser
- parseFromFile()
: gmx::SelectionCollection
- parseFromStdin()
: gmx::SelectionCollection
- parseFromString()
: gmx::SelectionCollection
- parseInteractive()
: gmx::SelectionCollection
- parseRequestedFromFile()
: gmx::SelectionOptionManager
- parseRequestedFromStdin()
: gmx::SelectionOptionManager
- parseRequestedFromString()
: gmx::SelectionOptionManager
- partialCleanUp()
: MoleculeInformation
- path
: gmx::InstallationPrefixInfo
- path_
: gmx::test::TestReferenceChecker::Impl
- pbc
: gmx_sel_evaluate_t
, gmx::SelMethodEvalContext
, t_swap
, gmx::TrajectoryFrame
- pbcAtomSet
: pull_group_work_t
- pbcName
: gmx::test::anonymous_namespace{settle.cpp}::SettleTestParameters
- pbcs_
: gmx::test::anonymous_namespace{constr.cpp}::ConstraintsTest
, gmx::test::anonymous_namespace{settle.cpp}::SettleTest
- pc
: gmx::SelectionTreeElement
, t_methoddata_pos
- pcc
: gmx_ana_selcollection_t
, t_methoddata_pos
- pcrd
: t_UmbrellaHeader
- peerRankId
: gmx_pme_pp
- pendingLimit_
: gmx::internal::AnalysisDataStorageImpl
- perform3dFft()
: GpuParallel3dFft
- performGPUFFT
: PmeGpuSettings
- performGPUGather
: PmeGpuSettings
- performGPUSolve
: PmeGpuSettings
- performOutOfPlaceFFT
: PmeGpuSpecific
- performPreviouslySkippedUpdates()
: gmx::PointState
- period
: gmx::CheckpointOptions
, gmx::GridAxis
- periodicBoundaryConditionType()
: gmx::anonymous_namespace{densityfitting.cpp}::DensityFittingSimulationParameterSetup
- perm
: t_methoddata_permute
- pforce
: gmx::LegacyMdrunOptions
- phi
: t_bb
- PhysicalNodeCommunicator()
: gmx::PhysicalNodeCommunicator
- pinningPolicy()
: gmx::HostAllocationPolicy
- pl_h2d
: Nbnxm::gpu_timers_t::Interaction
- pl_h2d_c
: gmx_wallclock_gpu_nbnxn_t
- pl_h2d_t
: gmx_wallclock_gpu_nbnxn_t
- placeSelectionsInRequests()
: gmx::SelectionOptionManager::Impl
- plan
: gmx_fft_fftw3
- plist
: gmx_nbnxn_cuda_t
, gmx_nbnxn_ocl_t
- plotFormat()
: gmx::AnalysisDataPlotSettings
- plotSettings
: gmx::TrajectoryAnalysisSettings::Impl
, gmx::TrajectoryAnalysisSettings
- pme_order
: PmeShared
- pmeCoordinateReceiverGpu
: gmx_pme_pp
- pmedata
: pme_setup_t
- pmeForceSenderGpu
: gmx_pme_pp
- PmeForceSenderGpu()
: gmx::PmeForceSenderGpu
- pmeForcesReady
: PmeGpuSpecific
- PmeGpuProgramImpl()
: PmeGpuProgramImpl
- PmeKernelHandle
: PmeGpuProgramImpl
- PmeLoadBalanceHelper()
: gmx::PmeLoadBalanceHelper
- PmePpCommGpu()
: gmx::PmePpCommGpu
- pmePrinting()
: gmx::PmeLoadBalanceHelper
- pmeRanks_
: gmx::DomainDecompositionBuilder::Impl
- pmeStream
: PmeGpuSpecific
- point()
: gmx::Grid
- pointer
: gmx::basic_mdspan< ElementType, Extents, LayoutPolicy, AccessorPolicy >
, gmx::internal::SimdArrayRef< T >
, gmx::ArrayRef< T >
, gmx::EnumerationArray< EnumType, DataType, ArraySize >
, gmx::FixedCapacityVector< T, capacity >
, gmx::ArrayRefWithPadding< T >
, gmx::accessor_basic< ElementType >
- points()
: gmx::BiasState
- pointsAdded()
: gmx::IAnalysisDataModule
, gmx::AnalysisDataModuleSerial
, gmx::AnalysisDataModuleParallel
, gmx::AnalysisDataProxy
, gmx::AnalysisDataAverageModule
, gmx::AnalysisDataFrameAverageModule
, gmx::AnalysisDataDisplacementModule
, gmx::internal::BasicAverageHistogramModule
, gmx::AnalysisDataSimpleHistogramModule
, gmx::AnalysisDataWeightedHistogramModule
, gmx::AnalysisDataBinAverageModule
, gmx::AnalysisDataLifetimeModule
, gmx::AbstractPlotModule
, gmx::AnalysisDataPlotModule
, gmx::AnalysisDataVectorPlotModule
, gmx::analysismodules::anonymous_namespace{select.cpp}::IndexFileWriterModule
- pointSet()
: gmx::internal::AnalysisDataStorageFrameData
, gmx::AnalysisDataFrameRef
, gmx::test::AnalysisDataTestInputFrame
- pointSetCount()
: gmx::test::AnalysisDataTestInputFrame
, gmx::AnalysisDataFrameRef
, gmx::internal::AnalysisDataStorageFrameData
- PointState()
: gmx::PointState
- pop_back()
: gmx::FixedCapacityVector< T, capacity >
, gmx::KeyValueTreePath
- pop_last()
: gmx::KeyValueTreePath
- port
: gmx::ImdSession::Impl
, gmx::ImdOptions
- pos
: t_UmbrellaWindow
, gmx::SelectionTreeElement
- posCount()
: gmx::internal::SelectionData
, gmx::Selection
- position()
: gmx::Selection
- PositionCalculationCollection()
: gmx::PositionCalculationCollection
- positionsDatabase_
: gmx::anonymous_namespace{shake.cpp}::ShakeTest
- positionsView()
: gmx::StatePropagatorData
- PositionSymbol
: gmx::SelectionParserSymbol
- posres_xA
: gmx_molblock_t
- posres_xB
: gmx_molblock_t
- PotAngleFit
: gmx_enfrotgrp
- PotentialPointData()
: gmx::PotentialPointData
- ppRanks
: gmx_pme_pp
- pprms2
: t_bb
- prec
: gmx::OutputRequirements
- precision
: gmx::OutputRequirements
- prepareAndWriteFrame()
: gmx::TrajectoryFrameWriter
- prepareForPositionAssembly()
: gmx::ImdSession::Impl
- prepareMasterSocket()
: gmx::ImdSession::Impl
- prepareMDForces()
: gmx::ImdSession::Impl
- prepareMoleculesInImdGroup()
: gmx::ImdSession::Impl
- prepareReferenceData()
: gmx::test::anonymous_namespace{periodicactions.cpp}::PeriodicActionsTest
- prepareTest()
: gmx::test::SetAtomsSupportedFiles
, gmx::test::AnyOutputSupportedFiles
, gmx::test::NoOptionalOutput
, gmx::test::OutputSelectorDeathTest
, gmx::test::SetPrecisionSupportedFiles
, gmx::test::SetVelocityUnSupportedFiles
, gmx::test::SetForceSupportedFiles
, gmx::test::SetForceUnSupportedFiles
, gmx::test::SetPrecisionUnSupportedFiles
, gmx::test::SetVelocitySupportedFiles
, gmx::test::SetAtomsUnSupportedFiles
- prepareVmdForces()
: gmx::ImdSession::Impl
- prependContext()
: gmx::GromacsException
, gmx::anonymous_namespace{exceptions.cpp}::ErrorMessage
- PreprocessingAtomTypes()
: PreprocessingAtomTypes
- pres
: gmx_repl_ex
- pres_prev
: t_state
- present()
: gmx::AnalysisDataPointSetRef
, gmx::AnalysisDataFrameRef
, gmx::test::AnalysisDataTestInputPointSet
- presentAllData()
: gmx::test::AnalysisDataTestFixture
- presentData()
: gmx::AnalysisDataModuleManager::Impl
- presentDataFrame()
: gmx::test::AnalysisDataTestFixture
- pressure()
: gmx::EnergyElement
, DispersionCorrection::Correction
- pressure_
: gmx::test::anonymous_namespace{energyoutput.cpp}::EnergyOutputTest
- pressureCouplingScheme
: gmx::test::anonymous_namespace{energyoutput.cpp}::EnergyOutputTestParameters
- prev
: gmx_ana_poscalc_t
- prev_pos_kw
: gmx_sel_lexer_t
- previousBlockIndex()
: gmx::CorrelationBlockData
- previousBox()
: gmx::StatePropagatorData
, PmeShared
- previousPositionsView()
: gmx::StatePropagatorData
- printBinaryInformation
: gmx::BinaryInformationSettings
- printCycles()
: SearchCycleCounting
- printDebugInfo()
: gmx::Selection
- printInfo()
: gmx::Selection
- printInitializationToLog()
: gmx::Bias
- printThanks()
: gmx::CommandLineModuleManager::Impl
- printTree()
: gmx::PositionCalculationCollection
, gmx::SelectionCollection
- printTypes()
: PreprocessingAtomTypes
- printXvgrInfo()
: gmx::SelectionCollection
- PrivateImplPointer()
: gmx::PrivateImplPointer< Impl >
- prob
: gmx_repl_ex
- prob_sum
: gmx_repl_ex
- process()
: gmx::OutputRequirementOptionDirector
- processAll()
: gmx::AbstractOptionStorage
, gmx::OptionStorageTemplate< T >
- processAwhFrame()
: AwhReader
- processCommonOptions()
: gmx::CommandLineModuleManager::Impl
- processFrame()
: gmx::OutputSelector
, gmx::SetVelocities
, gmx::IOutputAdapter
, gmx::SetForces
, gmx::SetPrecision
, gmx::SetStartTime
, gmx::SetAtoms
, gmx::SetBox
, gmx::SetTimeStep
- processId()
: gmx::BinaryInformationSettings
- processItem()
: gmx::test::TestReferenceChecker::Impl
- processMarkup()
: gmx::HelpWriterContext::Impl
- processSet()
: gmx::AbstractOptionStorage
, gmx::OptionStorageTemplate< T >
- processSetValues()
: gmx::OptionStorageTemplate< T >
- processValue()
: gmx::OptionStorageTemplateSimple< T >
- program
: gmx_device_runtime_data_t
- program_
: gmx::test::TestHardwareContext
- programContext_
: gmx::CommandLineModuleManager::Impl
- programHandle_
: PmeGpu
- programName()
: gmx::anonymous_namespace{programcontext.cpp}::DefaultProgramContext
, gmx::test::anonymous_namespace{testinit.cpp}::TestProgramContext
, gmx::IProgramContext
, gmx::CommandLineProgramContext
- prop
: AtomProperties::Impl
, AtomProperties
- propagate_on_container_copy_assignment
: gmx::HostAllocationPolicy
- propagate_on_container_move_assignment
: gmx::HostAllocationPolicy
- propagate_on_container_swap
: gmx::HostAllocationPolicy
- Propagator()
: gmx::Propagator< algorithm >
- ProxyPtr()
: ProxyPtr< T >
- prScalingCallback()
: gmx::Propagator< algorithm >
- prune_k
: Nbnxm::gpu_timers_t::Interaction
- pruneTime
: gmx_wallclock_gpu_nbnxn_t
- pselstr
: gmx_sel_lexer_t
- psi
: t_bb
- ptr
: gmx_sel_mempool_block_t
, Nbnxm::BoundingBox::Corner
, gmx_ana_selvalue_t
, Nbnxm::BoundingBox::Corner
- ptype
: t_mdatoms
- pull
: gmx::ImdOptions
- pull_com_prev_step
: t_state
- pull_group_work_t()
: pull_group_work_t
- pull_type
: t_pullcoord
- pull_work
: anonymous_namespace{minimize.cpp}::EnergyEvaluator
, gmx::ISimulator
- pullCoordIndex_
: gmx::BiasCoupledToSystem
- pullHistory
: ObservablesHistory
- pupdate
: gmx_ana_selmethod_t
- push_back()
: gmx::FixedCapacityVector< T, capacity >
- putOnGrid()
: Nbnxm::GridSet