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- p -
packedBoundingBoxes() :
Nbnxm::Grid
paddedArrayRef() :
gmx::ArrayRefWithPadding< typename >
paddedConstArrayRef() :
gmx::ArrayRefWithPadding< typename >
paddedNumAtomsInColumn() :
Nbnxm::Grid
paddedSize() :
gmx::PaddedVector< T, Allocator >
PaddedVector() :
gmx::PaddedVector< T, Allocator >
PairDistanceModuleData() :
gmx::analysismodules::anonymous_namespace{pairdist.cpp}::PairDistanceModuleData
pairlistInnerRadius() :
nonbonded_verlet_t
pairlistIsSimple() :
nonbonded_verlet_t
pairlistOuterRadius() :
nonbonded_verlet_t
PairlistParams() :
PairlistParams
PairlistSet() :
PairlistSet
pairlistSet() :
PairlistSets
pairlistSets() :
nonbonded_verlet_t
PairlistSets() :
PairlistSets
PairSearch() :
PairSearch
paragraphBreak() :
gmx::HelpWriterContext
ParallelConsistencyError() :
gmx::ParallelConsistencyError
parallelDataStarted() :
gmx::AnalysisDataProxy
,
gmx::IAnalysisDataModule
,
gmx::AnalysisDataModuleParallel
,
gmx::AnalysisDataSimpleHistogramModule
,
gmx::AnalysisDataWeightedHistogramModule
parallelizationFactor() :
gmx::AnalysisDataParallelOptions
parallelSelection() :
gmx::TrajectoryAnalysisModuleData
parallelSelections() :
gmx::TrajectoryAnalysisModuleData
param() :
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
parameters() :
gmx::QMMMOptions
parametersAllMasses1() :
gmx::SettleData
parametersMassWeighted() :
gmx::SettleData
params() :
gmx::Bias
,
nbnxn_atomdata_t
,
PairlistSets
Params() :
nbnxn_atomdata_t::Params
paramsDeprecated() :
nbnxn_atomdata_t
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
particleName() :
SimulationParticle
particleTypeNameA() :
SimulationParticle
particleTypeNameB() :
SimulationParticle
pbc() :
gmx::TrajectoryFrame
pbcType() :
gmx::TopologyInformation
PdbAtomEntry() :
PdbAtomEntry
perform3dFft() :
gmx::Gpu3dFft
,
gmx::Gpu3dFft::ImplCuFft
,
gmx::Gpu3dFft::ImplCuFftMp
,
gmx::Gpu3dFft::Impl
,
gmx::Gpu3dFft::ImplOcl
,
gmx::Gpu3dFft::ImplOclVkfft
,
gmx::Gpu3dFft::ImplSycl
,
gmx::Gpu3dFft::ImplSyclBbfft
,
gmx::Gpu3dFft::ImplSyclMkl
,
gmx::Gpu3dFft::ImplSyclRocfft
,
gmx::Gpu3dFft::ImplSyclVkfft
performPatternSearch() :
gmx::analysismodules::anonymous_namespace{dssp.cpp}::SecondaryStructures
performPreviouslySkippedUpdates() :
gmx::PointState
period() :
gmx::GridAxis
periodicBoundaryConditionType() :
gmx::ColvarsSimulationsParameters
,
gmx::anonymous_namespace{densityfitting.cpp}::DensityFittingSimulationParameterSetup
,
gmx::anonymous_namespace{qmmm.cpp}::QMMMSimulationParameterSetup
permitSeparatePmeRanks() :
gmx::SeparatePmeRanksPermitted
PhysicalNodeCommunicator() :
gmx::PhysicalNodeCommunicator
pinningPolicy() :
gmx::HostAllocationPolicy
,
gmx::ForceBuffers
placeSelectionsInRequests() :
gmx::SelectionOptionManager::Impl
plotFormat() :
gmx::AnalysisDataPlotSettings
plotSettings() :
gmx::TrajectoryAnalysisSettings
PmeForceSenderGpu() :
gmx::PmeForceSenderGpu
PmeGpuProgram() :
PmeGpuProgram
PmeGpuProgramImpl() :
PmeGpuProgramImpl
PmeGpuSpecific() :
PmeGpuSpecific
PmeLoadBalanceHelper() :
gmx::PmeLoadBalanceHelper
PmePpCommGpu() :
gmx::PmePpCommGpu
pmePrinting() :
gmx::PmeLoadBalanceHelper
PmeSolve() :
PmeSolve
point() :
gmx::BiasGrid
points() :
gmx::BiasState
pointsAdded() :
gmx::AnalysisDataProxy
,
gmx::internal::BasicAverageHistogramModule
,
gmx::analysismodules::anonymous_namespace{select.cpp}::IndexFileWriterModule
,
gmx::IAnalysisDataModule
,
gmx::AnalysisDataModuleSerial
,
gmx::AnalysisDataModuleParallel
,
gmx::AnalysisDataAverageModule
,
gmx::AnalysisDataFrameAverageModule
,
gmx::AnalysisDataDisplacementModule
,
gmx::AnalysisDataSimpleHistogramModule
,
gmx::AnalysisDataWeightedHistogramModule
,
gmx::AnalysisDataBinAverageModule
,
gmx::AnalysisDataLifetimeModule
,
gmx::AbstractPlotModule
,
gmx::AnalysisDataPlotModule
,
gmx::AnalysisDataVectorPlotModule
pointSet() :
gmx::internal::AnalysisDataStorageFrameData
,
gmx::test::AnalysisDataTestInputFrame
,
gmx::AnalysisDataFrameRef
pointSetCount() :
gmx::AnalysisDataFrameRef
,
gmx::internal::AnalysisDataStorageFrameData
,
gmx::test::AnalysisDataTestInputFrame
PointState() :
gmx::PointState
pop_back() :
gmx::FixedCapacityVector< typename, size_t >
,
gmx::KeyValueTreePath
pop_last() :
gmx::KeyValueTreePath
posCount() :
gmx::internal::SelectionData
,
gmx::Selection
position() :
gmx::Selection
position_distance() :
gmx::ColvarProxyGromacs
PositionCalculationCollection() :
gmx::PositionCalculationCollection
positionScalingCallback() :
gmx::Propagator< integrationStage >
positionsView() :
gmx::StatePropagatorData
potential() :
gmx::AwhParams
PotentialPointData() :
gmx::PotentialPointData
ppCommAtomRange() :
gmx::PmeCoordinateReceiverGpu::Impl
ppCommNumSenderRanks() :
gmx::PmeCoordinateReceiverGpu::Impl
ppCommStream() :
gmx::PmeCoordinateReceiverGpu::Impl
prepareAndTransformCoordinates() :
gmx::ProcessFrameConversion
prepareAndWriteFrame() :
gmx::TrajectoryFrameWriter
prepareForPositionAssembly() :
gmx::ImdSession::Impl
prepareMainSocket() :
gmx::ImdSession::Impl
prepareMDForces() :
gmx::ImdSession::Impl
prepareMoleculesInImdGroup() :
gmx::ImdSession::Impl
prepareReferenceData() :
gmx::test::PeriodicActionsTest
prepareTest() :
gmx::test::SetAtomsSupportedFiles
,
gmx::test::SetAtomsUnSupportedFiles
,
gmx::test::AnyOutputSupportedFiles
,
gmx::test::OutputSelectorDeathTest
,
gmx::test::SetVelocitySupportedFiles
,
gmx::test::SetVelocityUnSupportedFiles
,
gmx::test::SetForceUnSupportedFiles
,
gmx::test::SetPrecisionSupportedFiles
,
gmx::test::SetPrecisionUnSupportedFiles
,
gmx::test::SetForceSupportedFiles
,
gmx::test::NoOptionalOutput
prepareVmdForces() :
gmx::ImdSession::Impl
prependContext() :
gmx::anonymous_namespace{exceptions.cpp}::ErrorMessage
,
gmx::GromacsException
preprocess() :
gmx::QMMMTopologyPreprocessor
PreprocessingAtomTypes() :
PreprocessingAtomTypes
present() :
gmx::AnalysisDataPointSetRef
,
gmx::test::AnalysisDataTestInputPointSet
,
gmx::AnalysisDataFrameRef
presentAllData() :
gmx::test::AnalysisDataTestFixture
presentData() :
gmx::AnalysisDataModuleManager::Impl
presentDataFrame() :
gmx::test::AnalysisDataTestFixture
pressure() :
gmx::EnergyData
previousBlockIndex() :
gmx::CorrelationBlockData
previousBox() :
gmx::StatePropagatorData
previousPositionsView() :
gmx::StatePropagatorData
printCycles() :
SearchCycleCounting
printDebugInfo() :
gmx::Selection
printInfo() :
gmx::Selection
printInitializationToLog() :
gmx::Bias
printStringTableStorageToFile() :
StringTable
printThanks() :
gmx::CommandLineModuleManager::Impl
printTree() :
gmx::PositionCalculationCollection
,
gmx::SelectionCollection
printXvgrInfo() :
gmx::SelectionCollection
process() :
gmx::OutputRequirementOptionDirector
processAll() :
gmx::AbstractOptionStorage
,
gmx::OptionStorageTemplate< T >
processAtomsRedistributedSignal() :
gmx::ColvarsForceProvider
processAwhFrame() :
AwhReader
processCommonOptions() :
gmx::CommandLineModuleManager::Impl
processCoordinates() :
gmx::ColvarsOptions
,
gmx::QMMMOptions
processEdrFilename() :
gmx::ColvarsOptions
processFrame() :
gmx::SetBox
,
gmx::SetAtoms
,
gmx::SetPrecision
,
gmx::IOutputAdapter
,
gmx::SetStartTime
,
gmx::SetForces
,
gmx::SetVelocities
,
gmx::OutputSelector
,
gmx::SetTimeStep
ProcessFrameConversion() :
gmx::ProcessFrameConversion
processId() :
gmx::BinaryInformationSettings
processItem() :
gmx::test::TestReferenceChecker::Impl
processMarkup() :
gmx::HelpWriterContext::Impl
processSet() :
gmx::OptionStorageTemplate< T >
,
gmx::AbstractOptionStorage
processSetValues() :
gmx::OptionStorageTemplate< T >
processTemperature() :
gmx::ColvarsOptions
processTopology() :
gmx::ColvarsOptions
processTprFilename() :
gmx::QMMMOptions
processValue() :
gmx::OptionStorageTemplateSimple< T >
Profiling() :
gmx::Profiling
programName() :
gmx::test::anonymous_namespace{testinit.cpp}::TestProgramContext
,
gmx::CommandLineProgramContext
,
gmx::IProgramContext
,
gmx::anonymous_namespace{programcontext.cpp}::DefaultProgramContext
prop() :
AtomProperties
Propagator() :
gmx::Propagator< integrationStage >
propagatorCallback() :
gmx::MttkData
,
gmx::MttkPropagatorConnection
PropagatorTag() :
gmx::PropagatorTag
prScalingCallback() :
gmx::Propagator< integrationStage >
ptr() :
Nbnxm::BoundingBox::Corner
ptype() :
SimulationParticle
pull_coord_work_t() :
pull_coord_work_t
pull_group_work_t() :
pull_group_work_t
PullCoordExpressionParser() :
gmx::PullCoordExpressionParser
pullDimParams() :
gmx::DimParams
PullElement() :
gmx::PullElement
push_back() :
PackedJClusterList
,
gmx::FixedCapacityVector< typename, size_t >
,
InteractionList
,
JClusterList
,
InteractionList
pushBack() :
gmx::ListOfLists< typename >
pushBackListOfSize() :
gmx::ListOfLists< typename >
putAtomsOnGrid() :
nonbonded_verlet_t
putOnGrid() :
PairSearch
,
Nbnxm::GridSet
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