Index

A

addForce() (espressopp.integrator.LBInit.espressopp.integrator.LBInit method) angle_between_vectors() (in module espressopp.external.transformations) Arcball (class in espressopp.external.transformations)

arcball_constrain_to_axis() (in module espressopp.external.transformations) arcball_map_to_sphere() (in module espressopp.external.transformations) arcball_nearest_axis() (in module espressopp.external.transformations)

C

call() (in module espressopp.pmi) clip_matrix() (in module espressopp.external.transformations) compose_matrix() (in module espressopp.external.transformations) computeEnergy() (espressopp.interaction.AngularPotential.espressopp.interaction.AngularPotential method) computeForce() (espressopp.interaction.AngularPotential.espressopp.interaction.AngularPotential method) concatenate_matrices() (in module espressopp.external.transformations) connect() (in module espressopp.tools.vmd)

convertTable() (in module espressopp.tools.gromacs) CoulombTruncated (class in espressopp.interaction.CoulombTruncated) CoulombTruncatedUniqueCharge (class in espressopp.interaction.CoulombTruncatedUniqueCharge) create() (in module espressopp.pmi) createCubic() (in module espressopp.tools.lattice) createDenVel() (espressopp.integrator.LBInit.espressopp.integrator.LBInit method) createDiamond() (in module espressopp.tools.lattice)

D

decompose_matrix() (in module espressopp.external.transformations) Default() (espressopp.standard_system.Default.espressopp.standard_system method) DihedralHarmonic (class in espressopp.interaction.DihedralHarmonic) DihedralHarmonicCos (class in espressopp.interaction.DihedralHarmonicCos)

DihedralHarmonicNCos (class in espressopp.interaction.DihedralHarmonicNCos) displacement (in module espressopp.integrator.MinimizeEnergy) down() (espressopp.external.transformations.Arcball method) drag() (espressopp.external.transformations.Arcball method)

E

espressopp.__Int3D() (in module espressopp.Int3D) espressopp.__Int3D.x() (in module espressopp.Int3D) espressopp.__Int3D.y() (in module espressopp.Int3D) espressopp.__Int3D.z() (in module espressopp.Int3D) espressopp.__Real3D() (in module espressopp.Real3D) espressopp.__Real3D.x() (in module espressopp.Real3D) espressopp.__Real3D.y() (in module espressopp.Real3D) espressopp.__Real3D.z() (in module espressopp.Real3D) espressopp.__RealND() (in module espressopp.RealND) espressopp.analysis.AdressDensity (module) espressopp.analysis.AdressDensity() (in module espressopp.analysis.AdressDensity) espressopp.analysis.AdressDensity.addExclusions() (in module espressopp.analysis.AdressDensity) espressopp.analysis.AdressDensity.compute() (in module espressopp.analysis.AdressDensity) espressopp.analysis.AllParticlePos (module) espressopp.analysis.AllParticlePos.gatherAllPositions() (in module espressopp.analysis.AllParticlePos) espressopp.analysis.AnalysisBase (module) espressopp.analysis.AnalysisBase.compute() (in module espressopp.analysis.AnalysisBase) espressopp.analysis.AnalysisBase.getAverageValue() (in module espressopp.analysis.AnalysisBase) espressopp.analysis.AnalysisBase.getNumberOfMeasurements() (in module espressopp.analysis.AnalysisBase) espressopp.analysis.AnalysisBase.performMeasurement() (in module espressopp.analysis.AnalysisBase) espressopp.analysis.AnalysisBase.reset() (in module espressopp.analysis.AnalysisBase) espressopp.analysis.Autocorrelation (module) espressopp.analysis.Autocorrelation() (in module espressopp.analysis.Autocorrelation) espressopp.analysis.Autocorrelation.clear() (in module espressopp.analysis.Autocorrelation) espressopp.analysis.Autocorrelation.compute() (in module espressopp.analysis.Autocorrelation) espressopp.analysis.Autocorrelation.gather() (in module espressopp.analysis.Autocorrelation) espressopp.analysis.CenterOfMass (module) espressopp.analysis.CenterOfMass() (in module espressopp.analysis.CenterOfMass) espressopp.analysis.CMVelocity (class in espressopp.analysis.CMVelocity) (module) espressopp.analysis.CMVelocity.compute() (in module espressopp.analysis.CMVelocity) espressopp.analysis.CMVelocity.reset() (in module espressopp.analysis.CMVelocity) espressopp.analysis.ConfigsParticleDecomp (module) espressopp.analysis.ConfigsParticleDecomp() (in module espressopp.analysis.ConfigsParticleDecomp) espressopp.analysis.ConfigsParticleDecomp.clear() (in module espressopp.analysis.ConfigsParticleDecomp) espressopp.analysis.ConfigsParticleDecomp.compute() (in module espressopp.analysis.ConfigsParticleDecomp) espressopp.analysis.ConfigsParticleDecomp.gather() (in module espressopp.analysis.ConfigsParticleDecomp) espressopp.analysis.ConfigsParticleDecomp.gatherFromFile() (in module espressopp.analysis.ConfigsParticleDecomp) espressopp.analysis.Configurations (module) espressopp.analysis.Configurations() (in module espressopp.analysis.Configurations) espressopp.analysis.Configurations.back() (in module espressopp.analysis.Configurations) espressopp.analysis.Configurations.clear() (in module espressopp.analysis.Configurations) espressopp.analysis.Configurations.gather() (in module espressopp.analysis.Configurations) espressopp.analysis.ConfigurationsExt (module) espressopp.analysis.ConfigurationsExt() (in module espressopp.analysis.ConfigurationsExt) espressopp.analysis.ConfigurationsExt.back() (in module espressopp.analysis.ConfigurationsExt) espressopp.analysis.ConfigurationsExt.clear() (in module espressopp.analysis.ConfigurationsExt) espressopp.analysis.ConfigurationsExt.gather() (in module espressopp.analysis.ConfigurationsExt) espressopp.analysis.Energy (module) espressopp.analysis.EnergyKin() (in module espressopp.analysis.Energy) espressopp.analysis.EnergyKin.compute() (in module espressopp.analysis.Energy) espressopp.analysis.EnergyPot() (in module espressopp.analysis.Energy) espressopp.analysis.EnergyPot.compute() (in module espressopp.analysis.Energy) espressopp.analysis.EnergyTot() (in module espressopp.analysis.Energy) espressopp.analysis.EnergyTot.compute() (in module espressopp.analysis.Energy) espressopp.analysis.IntraChainDistSq (module) espressopp.analysis.IntraChainDistSq() (in module espressopp.analysis.IntraChainDistSq) espressopp.analysis.IntraChainDistSq.compute() (in module espressopp.analysis.IntraChainDistSq) espressopp.analysis.LBOutput (module) espressopp.analysis.LBOutputScreen (class in espressopp.analysis.LBOutputScreen) (module) espressopp.analysis.LBOutputVzInTime (class in espressopp.analysis.LBOutputVzInTime) (module) espressopp.analysis.LBOutputVzOfX (class in espressopp.analysis.LBOutputVzOfX) (module) espressopp.analysis.MaxPID (module) espressopp.analysis.MaxPID() (in module espressopp.analysis.MaxPID) espressopp.analysis.MeanSquareDispl (module) espressopp.analysis.MeanSquareDispl() (in module espressopp.analysis.MeanSquareDispl) espressopp.analysis.MeanSquareDispl.computeG2() (in module espressopp.analysis.MeanSquareDispl) espressopp.analysis.MeanSquareDispl.computeG3() (in module espressopp.analysis.MeanSquareDispl) espressopp.analysis.MeanSquareDispl.strange() (in module espressopp.analysis.MeanSquareDispl) espressopp.analysis.MeanSquareInternalDist (module) espressopp.analysis.MeanSquareInternalDist() (in module espressopp.analysis.MeanSquareInternalDist) espressopp.analysis.MeanSquareInternalDist.strange() (in module espressopp.analysis.MeanSquareInternalDist) espressopp.analysis.NeighborFluctuation (module) espressopp.analysis.NeighborFluctuation() (in module espressopp.analysis.NeighborFluctuation) espressopp.analysis.NPart (module) espressopp.analysis.NPart() (in module espressopp.analysis.NPart) espressopp.analysis.NPartSubregion (module) espressopp.analysis.NPartSubregion() (in module espressopp.analysis.NPartSubregion) espressopp.analysis.Observable (module) espressopp.analysis.Observable.compute() (in module espressopp.analysis.Observable) espressopp.analysis.OrderParameter (module) espressopp.analysis.OrderParameter() (in module espressopp.analysis.OrderParameter) espressopp.analysis.ParticleRadiusDistribution (module) espressopp.analysis.ParticleRadiusDistribution() (in module espressopp.analysis.ParticleRadiusDistribution) espressopp.analysis.PotentialEnergy (module) espressopp.analysis.PotentialEnergy() (in module espressopp.analysis.PotentialEnergy) espressopp.analysis.Pressure (module) espressopp.analysis.Pressure() (in module espressopp.analysis.Pressure) espressopp.analysis.PressureTensor (module) espressopp.analysis.PressureTensor() (in module espressopp.analysis.PressureTensor) espressopp.analysis.PressureTensorLayer (module) espressopp.analysis.PressureTensorLayer() (in module espressopp.analysis.PressureTensorLayer) espressopp.analysis.PressureTensorMultiLayer (module) espressopp.analysis.PressureTensorMultiLayer() (in module espressopp.analysis.PressureTensorMultiLayer) espressopp.analysis.RadGyrXProfilePI (module) espressopp.analysis.RadGyrXProfilePI() (in module espressopp.analysis.RadGyrXProfilePI) espressopp.analysis.RadialDistrF (module) espressopp.analysis.RadialDistrF() (in module espressopp.analysis.RadialDistrF) espressopp.analysis.RadialDistrF.compute() (in module espressopp.analysis.RadialDistrF) espressopp.analysis.RDFatomistic (module) espressopp.analysis.RDFatomistic() (in module espressopp.analysis.RDFatomistic) espressopp.analysis.RDFatomistic.compute() (in module espressopp.analysis.RDFatomistic) espressopp.analysis.RDFatomistic.computePathIntegral() (in module espressopp.analysis.RDFatomistic) espressopp.analysis.StaticStructF (module) espressopp.analysis.StaticStructF() (in module espressopp.analysis.StaticStructF) espressopp.analysis.StaticStructF.compute() (in module espressopp.analysis.StaticStructF) espressopp.analysis.StaticStructF.computeSingleChain() (in module espressopp.analysis.StaticStructF) espressopp.analysis.SubregionTracking (module) espressopp.analysis.SubregionTracking() (in module espressopp.analysis.SubregionTracking) espressopp.analysis.SystemMonitor (module) espressopp.analysis.SystemMonitor() (in module espressopp.analysis.SystemMonitor) espressopp.analysis.SystemMonitor.add_observable() (in module espressopp.analysis.SystemMonitor) espressopp.analysis.SystemMonitor.info() (in module espressopp.analysis.SystemMonitor) espressopp.analysis.SystemMonitorOutputCSV() (in module espressopp.analysis.SystemMonitor) espressopp.analysis.Temperature (module) espressopp.analysis.Temperature() (in module espressopp.analysis.Temperature) espressopp.analysis.Test (module) espressopp.analysis.Test() (in module espressopp.analysis.Test) espressopp.analysis.Velocities (module) espressopp.analysis.Velocities() (in module espressopp.analysis.Velocities) espressopp.analysis.Velocities.clear() (in module espressopp.analysis.Velocities) espressopp.analysis.Velocities.gather() (in module espressopp.analysis.Velocities) espressopp.analysis.VelocityAutocorrelation (module) espressopp.analysis.VelocityAutocorrelation() (in module espressopp.analysis.VelocityAutocorrelation) espressopp.analysis.Viscosity (module) espressopp.analysis.Viscosity() (in module espressopp.analysis.Viscosity) espressopp.analysis.Viscosity.compute() (in module espressopp.analysis.Viscosity) espressopp.analysis.Viscosity.gather() (in module espressopp.analysis.Viscosity) espressopp.analysis.XDensity (module) espressopp.analysis.XDensity() (in module espressopp.analysis.XDensity) espressopp.analysis.XDensity.compute() (in module espressopp.analysis.XDensity) espressopp.analysis.XPressure (module) espressopp.analysis.XPressure() (in module espressopp.analysis.XPressure) espressopp.analysis.XPressure.compute() (in module espressopp.analysis.XPressure) espressopp.analysis.XTemperature (module) espressopp.analysis.XTemperature() (in module espressopp.analysis.XTemperature) espressopp.analysis.XTemperature.compute() (in module espressopp.analysis.XTemperature) espressopp.bc.BC (class in espressopp.bc.BC) (module) espressopp.bc.OrthorhombicBC (module) espressopp.bc.SlabBC (module) espressopp.check.System (module) espressopp.Error() (in module espressopp.Exceptions) espressopp.esutil.Collectives (module) espressopp.esutil.GammaVariate (module) espressopp.esutil.GammaVariate() (in module espressopp.esutil.GammaVariate) espressopp.esutil.Grid (module) espressopp.esutil.NormalVariate (module) espressopp.esutil.NormalVariate() (in module espressopp.esutil.NormalVariate) espressopp.esutil.RNG (module) espressopp.esutil.UniformOnSphere (module) espressopp.Exceptions (module) espressopp.external.transformations (module) espressopp.FixedLocalTupleList (module) espressopp.FixedLocalTupleList() (in module espressopp.FixedLocalTupleList) espressopp.FixedLocalTupleList.addTuple() (in module espressopp.FixedLocalTupleList) espressopp.FixedLocalTupleList.getTuples() (in module espressopp.FixedLocalTupleList) espressopp.FixedLocalTupleList.size() (in module espressopp.FixedLocalTupleList) espressopp.FixedPairDistList (module) espressopp.FixedPairDistList() (in module espressopp.FixedPairDistList) espressopp.FixedPairDistList.add() (in module espressopp.FixedPairDistList) espressopp.FixedPairDistList.addPairs() (in module espressopp.FixedPairDistList) espressopp.FixedPairDistList.getDist() (in module espressopp.FixedPairDistList) espressopp.FixedPairDistList.getPairs() (in module espressopp.FixedPairDistList) espressopp.FixedPairDistList.getPairsDist() (in module espressopp.FixedPairDistList) espressopp.FixedPairDistList.size() (in module espressopp.FixedPairDistList) espressopp.FixedPairList (module) espressopp.FixedPairList() (in module espressopp.FixedPairList) espressopp.FixedPairList.add() (in module espressopp.FixedPairList) espressopp.FixedPairList.addBonds() (in module espressopp.FixedPairList) espressopp.FixedPairList.getBonds() (in module espressopp.FixedPairList) espressopp.FixedPairList.getLongtimeMaxBond() (in module espressopp.FixedPairList) espressopp.FixedPairList.remove() (in module espressopp.FixedPairList) espressopp.FixedPairList.resetLongtimeMaxBond() (in module espressopp.FixedPairList) espressopp.FixedPairList.size() (in module espressopp.FixedPairList) espressopp.FixedPairList.totalSize() (in module espressopp.FixedPairList) espressopp.FixedPairListAdress (module) espressopp.FixedPairListAdress() (in module espressopp.FixedPairListAdress) espressopp.FixedPairListAdress.add() (in module espressopp.FixedPairListAdress) espressopp.FixedPairListAdress.addBonds() (in module espressopp.FixedPairListAdress) espressopp.FixedPairListAdress.getBonds() (in module espressopp.FixedPairListAdress) espressopp.FixedPairListAdress.remove() (in module espressopp.FixedPairListAdress) espressopp.FixedQuadrupleAngleList (module) espressopp.FixedQuadrupleAngleList() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleAngleList.add() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleAngleList.addQuadruples() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleAngleList.getAngle() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleAngleList.getQuadruples() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleAngleList.getQuadruplesAngles() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleAngleList.size() (in module espressopp.FixedQuadrupleAngleList) espressopp.FixedQuadrupleList (module) espressopp.FixedQuadrupleList() (in module espressopp.FixedQuadrupleList) espressopp.FixedQuadrupleList.add() (in module espressopp.FixedQuadrupleList) espressopp.FixedQuadrupleList.addQuadruples() (in module espressopp.FixedQuadrupleList) espressopp.FixedQuadrupleList.getQuadruples() (in module espressopp.FixedQuadrupleList) espressopp.FixedQuadrupleList.remove() (in module espressopp.FixedQuadrupleList) espressopp.FixedQuadrupleList.size() (in module espressopp.FixedQuadrupleList) espressopp.FixedQuadrupleListAdress (module) espressopp.FixedQuadrupleListAdress() (in module espressopp.FixedQuadrupleListAdress) espressopp.FixedQuadrupleListAdress.add() (in module espressopp.FixedQuadrupleListAdress) espressopp.FixedQuadrupleListAdress.addQuadruples() (in module espressopp.FixedQuadrupleListAdress) espressopp.FixedQuadrupleListAdress.getQuadruples() (in module espressopp.FixedQuadrupleListAdress) espressopp.FixedQuadrupleListAdress.size() (in module espressopp.FixedQuadrupleListAdress) espressopp.FixedSingleList (module) espressopp.FixedSingleList() (in module espressopp.FixedSingleList) espressopp.FixedSingleList.add() (in module espressopp.FixedSingleList) espressopp.FixedSingleList.addSingles() (in module espressopp.FixedSingleList) espressopp.FixedSingleList.getSingles() (in module espressopp.FixedSingleList) espressopp.FixedSingleList.size() (in module espressopp.FixedSingleList) espressopp.FixedTripleAngleList (module) espressopp.FixedTripleAngleList() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleAngleList.add() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleAngleList.addTriples() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleAngleList.getAngle() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleAngleList.getTriples() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleAngleList.getTriplesAngles() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleAngleList.size() (in module espressopp.FixedTripleAngleList) espressopp.FixedTripleList (module) espressopp.FixedTripleList() (in module espressopp.FixedTripleList) espressopp.FixedTripleList.add() (in module espressopp.FixedTripleList) espressopp.FixedTripleList.addTriples() (in module espressopp.FixedTripleList) espressopp.FixedTripleList.getTriples() (in module espressopp.FixedTripleList) espressopp.FixedTripleList.remove() (in module espressopp.FixedTripleList) espressopp.FixedTripleList.size() (in module espressopp.FixedTripleList) espressopp.FixedTripleListAdress (module) espressopp.FixedTripleListAdress() (in module espressopp.FixedTripleListAdress) espressopp.FixedTripleListAdress.add() (in module espressopp.FixedTripleListAdress) espressopp.FixedTripleListAdress.addTriples() (in module espressopp.FixedTripleListAdress) espressopp.FixedTripleListAdress.remove() (in module espressopp.FixedTripleListAdress) espressopp.FixedTupleList (module) espressopp.FixedTupleList() (in module espressopp.FixedTupleList) espressopp.FixedTupleList.size() (in module espressopp.FixedTupleList) espressopp.FixedTupleListAdress (module) espressopp.FixedTupleListAdress() (in module espressopp.FixedTupleListAdress) espressopp.FixedTupleListAdress.addTuples() (in module espressopp.FixedTupleListAdress) espressopp.Int3D (module) espressopp.integrator.Adress (class in espressopp.integrator.Adress) (module) espressopp.integrator.AssociationReaction (module) espressopp.integrator.BerendsenBarostat (module) espressopp.integrator.BerendsenBarostat() (in module espressopp.integrator.BerendsenBarostat) espressopp.integrator.BerendsenBarostatAnisotropic (module) espressopp.integrator.BerendsenBarostatAnisotropic() (in module espressopp.integrator.BerendsenBarostatAnisotropic) espressopp.integrator.BerendsenThermostat (module) espressopp.integrator.BerendsenThermostat() (in module espressopp.integrator.BerendsenThermostat) espressopp.integrator.CapForce (module) espressopp.integrator.CapForce() (in module espressopp.integrator.CapForce) espressopp.integrator.DPDThermostat (module) espressopp.integrator.DPDThermostat() (in module espressopp.integrator.DPDThermostat) espressopp.integrator.EmptyExtension (module) espressopp.integrator.EmptyExtension() (in module espressopp.integrator.EmptyExtension) espressopp.integrator.ExtAnalyze (module) espressopp.integrator.ExtAnalyze() (in module espressopp.integrator.ExtAnalyze) espressopp.integrator.Extension (module) espressopp.integrator.Extension.connect() (in module espressopp.integrator.Extension) espressopp.integrator.Extension.disconnect() (in module espressopp.integrator.Extension) espressopp.integrator.ExtForce (module) espressopp.integrator.ExtForce() (in module espressopp.integrator.ExtForce) espressopp.integrator.FixPositions (module) espressopp.integrator.FixPositions() (in module espressopp.integrator.FixPositions) espressopp.integrator.FreeEnergyCompensation (module) espressopp.integrator.FreeEnergyCompensation() (in module espressopp.integrator.FreeEnergyCompensation) espressopp.integrator.FreeEnergyCompensation.addForce() (in module espressopp.integrator.FreeEnergyCompensation) espressopp.integrator.FreeEnergyCompensation.computeCompEnergy() (in module espressopp.integrator.FreeEnergyCompensation) espressopp.integrator.GeneralizedLangevinThermostat (module) espressopp.integrator.GeneralizedLangevinThermostat() (in module espressopp.integrator.GeneralizedLangevinThermostat) espressopp.integrator.GeneralizedLangevinThermostat.addCoeffs() (in module espressopp.integrator.GeneralizedLangevinThermostat) espressopp.integrator.Isokinetic (module) espressopp.integrator.Isokinetic() (in module espressopp.integrator.Isokinetic) espressopp.integrator.LangevinBarostat (module) espressopp.integrator.LangevinBarostat() (in module espressopp.integrator.LangevinBarostat) espressopp.integrator.LangevinThermostat (module) espressopp.integrator.LangevinThermostat() (in module espressopp.integrator.LangevinThermostat) espressopp.integrator.LangevinThermostat.addExclusions() (in module espressopp.integrator.LangevinThermostat) espressopp.integrator.LangevinThermostat1D (module) espressopp.integrator.LangevinThermostat1D() (in module espressopp.integrator.LangevinThermostat1D) espressopp.integrator.LangevinThermostatHybrid (module) espressopp.integrator.LangevinThermostatOnGroup (module) espressopp.integrator.LangevinThermostatOnGroup() (in module espressopp.integrator.LangevinThermostatOnGroup) espressopp.integrator.LangevinThermostatOnRadius (module) espressopp.integrator.LangevinThermostatOnRadius() (in module espressopp.integrator.LangevinThermostatOnRadius) espressopp.integrator.LangevinThermostatOnRadius.addExclusions() (in module espressopp.integrator.LangevinThermostatOnRadius) espressopp.integrator.LatticeBoltzmann (class in espressopp.integrator.LatticeBoltzmann) (module) espressopp.integrator.LBInit (class in espressopp.integrator.LBInit) (module) espressopp.integrator.LBInitConstForce (module) espressopp.integrator.LBInitPeriodicForce (module) espressopp.integrator.LBInitPopUniform (module) espressopp.integrator.LBInitPopWave (module) espressopp.integrator.MDIntegrator (module) espressopp.integrator.MDIntegrator.addExtension() (in module espressopp.integrator.MDIntegrator) espressopp.integrator.MDIntegrator.getExtension() (in module espressopp.integrator.MDIntegrator) espressopp.integrator.MDIntegrator.getNumberOfExtensions() (in module espressopp.integrator.MDIntegrator) espressopp.integrator.MDIntegrator.run() (in module espressopp.integrator.MDIntegrator) espressopp.integrator.MinimizeEnergy (module) espressopp.integrator.MinimizeEnergy() (in module espressopp.integrator.MinimizeEnergy) espressopp.integrator.MinimizeEnergy.run() (in module espressopp.integrator.MinimizeEnergy) espressopp.integrator.OnTheFlyFEC (module) espressopp.integrator.OnTheFlyFEC() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.OnTheFlyFEC.getBins() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.OnTheFlyFEC.getGap() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.OnTheFlyFEC.getSteps() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.OnTheFlyFEC.makeArrays() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.OnTheFlyFEC.resetCounter() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.OnTheFlyFEC.writeFEC() (in module espressopp.integrator.OnTheFlyFEC) espressopp.integrator.PIAdressIntegrator (module) espressopp.integrator.PIAdressIntegrator() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.computeKineticEnergy() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.computeMomentumDrift() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.computePositionDrift() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.computeRingEnergy() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.computeRingEnergyRaw() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getCentroidThermostat() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getClmassmultiplier() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getCMDparameter() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getConstKinMass() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getGamma() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getKTI() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getmStep() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getNtrotter() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getPILE() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getPILElambda() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getRealKinMass() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getSpeedup() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getsStep() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getTemperature() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getTimeStep() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getVerletList() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.getVerletlistBuilds() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setCentroidThermostat() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setClmassmultiplier() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setCMDparameter() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setConstKinMass() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setGamma() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setKTI() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setmStep() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setNtrotter() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setPILE() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setPILElambda() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setRealKinMass() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setSpeedup() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setsStep() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setTemperature() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setTimeStep() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.PIAdressIntegrator.setVerletList() (in module espressopp.integrator.PIAdressIntegrator) espressopp.integrator.Rattle (module) espressopp.integrator.Settle (module) espressopp.integrator.Settle() (in module espressopp.integrator.Settle) espressopp.integrator.Settle.addMolecules() (in module espressopp.integrator.Settle) espressopp.integrator.StochasticVelocityRescaling (module) espressopp.integrator.StochasticVelocityRescaling() (in module espressopp.integrator.StochasticVelocityRescaling) espressopp.integrator.TDforce (module) espressopp.integrator.TDforce() (in module espressopp.integrator.TDforce) espressopp.integrator.TDforce.addForce() (in module espressopp.integrator.TDforce) espressopp.integrator.TDforce.computeTDEnergy() (in module espressopp.integrator.TDforce) espressopp.integrator.VelocityVerlet (module) espressopp.integrator.VelocityVerlet() (in module espressopp.integrator.VelocityVerlet) espressopp.integrator.VelocityVerletOnGroup (module) espressopp.integrator.VelocityVerletOnGroup() (in module espressopp.integrator.VelocityVerletOnGroup) espressopp.integrator.VelocityVerletOnRadius (module) espressopp.integrator.VelocityVerletOnRadius() (in module espressopp.integrator.VelocityVerletOnRadius) espressopp.integrator.VelocityVerletRESPA (class in espressopp.integrator.VelocityVerletRESPA) (module) espressopp.integrator.VelocityVerletRESPA.getmultistep() (in module espressopp.integrator.VelocityVerletRESPA) espressopp.integrator.VelocityVerletRESPA.setmultistep() (in module espressopp.integrator.VelocityVerletRESPA) espressopp.interaction.AngularCosineSquared (class in espressopp.interaction.AngularCosineSquared) (module) espressopp.interaction.AngularHarmonic (class in espressopp.interaction.AngularHarmonic) (module) espressopp.interaction.AngularPotential (class in espressopp.interaction.AngularPotential) (module) espressopp.interaction.CellListCoulombKSpaceEwald() (in module espressopp.interaction.CoulombKSpaceEwald) espressopp.interaction.CellListCoulombKSpaceEwald.getFixedPairList() (in module espressopp.interaction.CoulombKSpaceEwald) espressopp.interaction.CellListCoulombKSpaceEwald.getPotential() (in module espressopp.interaction.CoulombKSpaceEwald) espressopp.interaction.CellListCoulombKSpaceP3M() (in module espressopp.interaction.CoulombKSpaceP3M) espressopp.interaction.CellListCoulombKSpaceP3M.getPotential() (in module espressopp.interaction.CoulombKSpaceP3M) espressopp.interaction.CellListCoulombTruncatedUniqueCharge() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.CellListCoulombTruncatedUniqueCharge.setPotential() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.CellListLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.CellListLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.CellListLennardJonesAutoBonds() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.CellListLennardJonesAutoBonds.setPotential() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.CellListLennardJonesCapped() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.CellListLennardJonesCapped.getPotential() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.CellListLennardJonesCapped.setPotential() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.CellListLennardJonesEnergyCapped() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.CellListLennardJonesEnergyCapped.getPotential() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.CellListLennardJonesEnergyCapped.setPotential() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.CellListLennardJonesExpand() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.CellListLennardJonesExpand.setPotential() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.CellListLennardJonesGeneric() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.CellListLennardJonesGeneric.setPotential() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.CellListLennardJonesGromacs() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.CellListLennardJonesGromacs.setPotential() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.CellListLJcos() (in module espressopp.interaction.LJcos) espressopp.interaction.CellListLJcos.setPotential() (in module espressopp.interaction.LJcos) espressopp.interaction.CellListMorse() (in module espressopp.interaction.Morse) espressopp.interaction.CellListMorse.setPotential() (in module espressopp.interaction.Morse) espressopp.interaction.CellListReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.CellListReactionFieldGeneralized.setPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.CellListSoftCosine() (in module espressopp.interaction.SoftCosine) espressopp.interaction.CellListSoftCosine.setPotential() (in module espressopp.interaction.SoftCosine) espressopp.interaction.CellListStillingerWeberPairTerm() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.CellListStillingerWeberPairTerm.setPotential() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.CellListStillingerWeberPairTermCapped() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.CellListStillingerWeberPairTermCapped.setPotential() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.CellListTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.CellListTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.CellListTersoffPairTerm() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.CellListTersoffPairTerm.setPotential() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.CellListZero() (in module espressopp.interaction.Zero) espressopp.interaction.CellListZero.setPotential() (in module espressopp.interaction.Zero) espressopp.interaction.ConstrainCOM (module) espressopp.interaction.ConstrainCOM() (in module espressopp.interaction.ConstrainCOM) espressopp.interaction.ConstrainRG (module) espressopp.interaction.ConstrainRG() (in module espressopp.interaction.ConstrainRG) espressopp.interaction.Cosine (module) espressopp.interaction.Cosine() (in module espressopp.interaction.Cosine) espressopp.interaction.CoulombKSpaceEwald (module) espressopp.interaction.CoulombKSpaceEwald() (in module espressopp.interaction.CoulombKSpaceEwald) espressopp.interaction.CoulombKSpaceP3M (module) espressopp.interaction.CoulombKSpaceP3M() (in module espressopp.interaction.CoulombKSpaceP3M) espressopp.interaction.CoulombRSpace (module) espressopp.interaction.CoulombRSpace() (in module espressopp.interaction.CoulombRSpace) espressopp.interaction.CoulombTruncated (module) espressopp.interaction.CoulombTruncatedUniqueCharge (module) espressopp.interaction.CoulombTruncatedUniqueCharge() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.DihedralHarmonic (module) espressopp.interaction.DihedralHarmonic() (in module espressopp.interaction.DihedralHarmonic) espressopp.interaction.DihedralHarmonicCos (module) espressopp.interaction.DihedralHarmonicCos() (in module espressopp.interaction.DihedralHarmonicCos) espressopp.interaction.DihedralHarmonicNCos (module) espressopp.interaction.DihedralHarmonicNCos() (in module espressopp.interaction.DihedralHarmonicNCos) espressopp.interaction.DihedralPotential (module) espressopp.interaction.DihedralPotential.computeEnergy() (in module espressopp.interaction.DihedralPotential) espressopp.interaction.DihedralPotential.computeForce() (in module espressopp.interaction.DihedralPotential) espressopp.interaction.DihedralRB (module) espressopp.interaction.DihedralRB() (in module espressopp.interaction.DihedralRB) espressopp.interaction.FENE (class in espressopp.interaction.FENE) (module) espressopp.interaction.FENECapped (class in espressopp.interaction.FENECapped) (module) espressopp.interaction.FixedLocalTupleListConstrainCOM() (in module espressopp.interaction.ConstrainCOM) espressopp.interaction.FixedLocalTupleListConstrainCOM.getPotential() (in module espressopp.interaction.ConstrainCOM) espressopp.interaction.FixedLocalTupleListConstrainCOM.setCom() (in module espressopp.interaction.ConstrainCOM) espressopp.interaction.FixedLocalTupleListConstrainRG() (in module espressopp.interaction.ConstrainRG) espressopp.interaction.FixedLocalTupleListConstrainRG.getPotential() (in module espressopp.interaction.ConstrainRG) espressopp.interaction.FixedLocalTupleListConstrainRG.setRG() (in module espressopp.interaction.ConstrainRG) espressopp.interaction.FixedPairListCoulombTruncatedUniqueCharge() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.FixedPairListCoulombTruncatedUniqueCharge.setPotential() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.FixedPairListFENE (class in espressopp.interaction.FENE) espressopp.interaction.FixedPairListFENECapped (class in espressopp.interaction.FENECapped) espressopp.interaction.FixedPairListHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListHarmonic.getFixedPairList() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListHarmonic.setFixedPairList() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.FixedPairListLennardJones.getFixedPairList() (in module espressopp.interaction.LennardJones) espressopp.interaction.FixedPairListLennardJones.getPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.FixedPairListLennardJones.setFixedPairList() (in module espressopp.interaction.LennardJones) espressopp.interaction.FixedPairListLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.FixedPairListLennardJonesAutoBonds() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.FixedPairListLennardJonesAutoBonds.setPotential() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.FixedPairListLennardJonesCapped() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.FixedPairListLennardJonesCapped.getPotential() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.FixedPairListLennardJonesCapped.setPotential() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.FixedPairListLennardJonesEnergyCapped() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.FixedPairListLennardJonesEnergyCapped.getPotential() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.FixedPairListLennardJonesEnergyCapped.setPotential() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.FixedPairListLennardJonesExpand() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.FixedPairListLennardJonesExpand.setPotential() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.FixedPairListLennardJonesGeneric() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.FixedPairListLennardJonesGeneric.getFixedPairList() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.FixedPairListLennardJonesGeneric.getPotential() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.FixedPairListLennardJonesGeneric.setFixedPairList() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.FixedPairListLennardJonesGeneric.setPotential() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.FixedPairListLennardJonesGromacs() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.FixedPairListLennardJonesGromacs.setPotential() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.FixedPairListLJcos() (in module espressopp.interaction.LJcos) espressopp.interaction.FixedPairListLJcos.getFixedPairList() (in module espressopp.interaction.LJcos) espressopp.interaction.FixedPairListLJcos.setFixedPairList() (in module espressopp.interaction.LJcos) espressopp.interaction.FixedPairListLJcos.setPotential() (in module espressopp.interaction.LJcos) espressopp.interaction.FixedPairListMirrorLennardJones() (in module espressopp.interaction.MirrorLennardJones) espressopp.interaction.FixedPairListMirrorLennardJones.getFixedPairList() (in module espressopp.interaction.MirrorLennardJones) espressopp.interaction.FixedPairListMirrorLennardJones.getPotential() (in module espressopp.interaction.MirrorLennardJones) espressopp.interaction.FixedPairListMirrorLennardJones.setFixedPairList() (in module espressopp.interaction.MirrorLennardJones) espressopp.interaction.FixedPairListMirrorLennardJones.setPotential() (in module espressopp.interaction.MirrorLennardJones) espressopp.interaction.FixedPairListMorse() (in module espressopp.interaction.Morse) espressopp.interaction.FixedPairListMorse.setPotential() (in module espressopp.interaction.Morse) espressopp.interaction.FixedPairListPIadressTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.getFixedPairList() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.getFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.getNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.getPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.getSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.setFixedPairList() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.setFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.setNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListPIadressTabulated.setSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListQuartic() (in module espressopp.interaction.Quartic) espressopp.interaction.FixedPairListQuartic.getFixedPairList() (in module espressopp.interaction.Quartic) espressopp.interaction.FixedPairListQuartic.setFixedPairList() (in module espressopp.interaction.Quartic) espressopp.interaction.FixedPairListQuartic.setPotential() (in module espressopp.interaction.Quartic) espressopp.interaction.FixedPairListSoftCosine() (in module espressopp.interaction.SoftCosine) espressopp.interaction.FixedPairListSoftCosine.setPotential() (in module espressopp.interaction.SoftCosine) espressopp.interaction.FixedPairListStillingerWeberPairTerm() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.FixedPairListStillingerWeberPairTerm.setPotential() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.FixedPairListStillingerWeberPairTermCapped() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.FixedPairListStillingerWeberPairTermCapped.setPotential() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.FixedPairListTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListTersoffPairTerm() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.FixedPairListTersoffPairTerm.setPotential() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.FixedPairListTypesHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListTypesHarmonic.getFixedPairList() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListTypesHarmonic.getPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListTypesHarmonic.setFixedPairList() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListTypesHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.FixedPairListTypesTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListTypesTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.FixedPairListZero() (in module espressopp.interaction.Zero) espressopp.interaction.FixedPairListZero.setPotential() (in module espressopp.interaction.Zero) espressopp.interaction.FixedQuadrupleListDihedralHarmonic() (in module espressopp.interaction.DihedralHarmonic) espressopp.interaction.FixedQuadrupleListDihedralHarmonic.getFixedQuadrupleList() (in module espressopp.interaction.DihedralHarmonic) espressopp.interaction.FixedQuadrupleListDihedralHarmonic.setPotential() (in module espressopp.interaction.DihedralHarmonic) espressopp.interaction.FixedQuadrupleListDihedralHarmonicCos() (in module espressopp.interaction.DihedralHarmonicCos) espressopp.interaction.FixedQuadrupleListDihedralHarmonicCos.getFixedQuadrupleList() (in module espressopp.interaction.DihedralHarmonicCos) espressopp.interaction.FixedQuadrupleListDihedralHarmonicCos.setPotential() (in module espressopp.interaction.DihedralHarmonicCos) espressopp.interaction.FixedQuadrupleListDihedralHarmonicNCos() (in module espressopp.interaction.DihedralHarmonicNCos) espressopp.interaction.FixedQuadrupleListDihedralHarmonicNCos.getFixedQuadrupleList() (in module espressopp.interaction.DihedralHarmonicNCos) espressopp.interaction.FixedQuadrupleListDihedralHarmonicNCos.setPotential() (in module espressopp.interaction.DihedralHarmonicNCos) espressopp.interaction.FixedQuadrupleListDihedralRB() (in module espressopp.interaction.DihedralRB) espressopp.interaction.FixedQuadrupleListDihedralRB.getFixedQuadrupleList() (in module espressopp.interaction.DihedralRB) espressopp.interaction.FixedQuadrupleListDihedralRB.setPotential() (in module espressopp.interaction.DihedralRB) espressopp.interaction.FixedQuadrupleListOPLS() (in module espressopp.interaction.OPLS) espressopp.interaction.FixedQuadrupleListOPLS.setPotential() (in module espressopp.interaction.OPLS) espressopp.interaction.FixedQuadrupleListTabulatedDihedral() (in module espressopp.interaction.TabulatedDihedral) espressopp.interaction.FixedQuadrupleListTabulatedDihedral.setPotential() (in module espressopp.interaction.TabulatedDihedral) espressopp.interaction.FixedQuadrupleListTypesTabulatedDihedral() (in module espressopp.interaction.TabulatedDihedral), [1] espressopp.interaction.FixedQuadrupleListTypesTabulatedDihedral.setPotential() (in module espressopp.interaction.TabulatedDihedral) espressopp.interaction.FixedTripleListAngularCosineSquared (class in espressopp.interaction.AngularCosineSquared) espressopp.interaction.FixedTripleListAngularHarmonic (class in espressopp.interaction.AngularHarmonic) espressopp.interaction.FixedTripleListCosine() (in module espressopp.interaction.Cosine) espressopp.interaction.FixedTripleListCosine.getFixedTripleList() (in module espressopp.interaction.Cosine) espressopp.interaction.FixedTripleListCosine.setPotential() (in module espressopp.interaction.Cosine) espressopp.interaction.FixedTripleListPIadressTabulatedAngular() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.getFixedTripleList() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.getFixedTupleList() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.getNTrotter() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.getPotential() (in module espressopp.interaction.TabulatedAngular)

espressopp.interaction.FixedTripleListPIadressTabulatedAngular.getSpeedup() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.setFixedTripleList() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.setFixedTupleList() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.setNTrotter() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.setPotential() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListPIadressTabulatedAngular.setSpeedup() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListStillingerWeberTripleTerm() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.FixedTripleListStillingerWeberTripleTerm.getFixedTripleList() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.FixedTripleListStillingerWeberTripleTerm.setPotential() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.FixedTripleListTabulatedAngular() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListTabulatedAngular.setPotential() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListTersoffTripleTerm() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.FixedTripleListTersoffTripleTerm.getFixedTripleList() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.FixedTripleListTersoffTripleTerm.setPotential() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.FixedTripleListTypesTabulatedAngular() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.FixedTripleListTypesTabulatedAngular.setPotential() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.GravityTruncated (module) espressopp.interaction.GravityTruncated() (in module espressopp.interaction.GravityTruncated) espressopp.interaction.Harmonic (module) espressopp.interaction.Harmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.HarmonicTrap (module) espressopp.interaction.HarmonicTrap() (in module espressopp.interaction.HarmonicTrap) espressopp.interaction.Interaction (module) espressopp.interaction.Interaction.bondType() (in module espressopp.interaction.Interaction) espressopp.interaction.Interaction.computeEnergy() (in module espressopp.interaction.Interaction) espressopp.interaction.Interaction.computeEnergyAA() (in module espressopp.interaction.Interaction) espressopp.interaction.Interaction.computeEnergyCG() (in module espressopp.interaction.Interaction) espressopp.interaction.Interaction.computeEnergyDeriv() (in module espressopp.interaction.Interaction) espressopp.interaction.Interaction.computeVirial() (in module espressopp.interaction.Interaction) espressopp.interaction.LennardJones (module) espressopp.interaction.LennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.LennardJones93Wall (module) espressopp.interaction.LennardJones93Wall() (in module espressopp.interaction.LennardJones93Wall) espressopp.interaction.LennardJones93Wall.getParams() (in module espressopp.interaction.LennardJones93Wall) espressopp.interaction.LennardJones93Wall.setParams() (in module espressopp.interaction.LennardJones93Wall) espressopp.interaction.LennardJonesAutoBonds (module) espressopp.interaction.LennardJonesAutoBonds() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.LennardJonesCapped (module) espressopp.interaction.LennardJonesCapped() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.LennardJonesEnergyCapped (module) espressopp.interaction.LennardJonesEnergyCapped() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.LennardJonesExpand (module) espressopp.interaction.LennardJonesExpand() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.LennardJonesGeneric (module) espressopp.interaction.LennardJonesGeneric() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.LennardJonesGromacs (module) espressopp.interaction.LennardJonesGromacs() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.LennardJonesSoftcoreTI (module) espressopp.interaction.LJcos (module) espressopp.interaction.LJcos() (in module espressopp.interaction.LJcos) espressopp.interaction.MirrorLennardJones (module) espressopp.interaction.MirrorLennardJones() (in module espressopp.interaction.MirrorLennardJones) espressopp.interaction.Morse (module) espressopp.interaction.Morse() (in module espressopp.interaction.Morse) espressopp.interaction.OPLS (module) espressopp.interaction.OPLS() (in module espressopp.interaction.OPLS) espressopp.interaction.Potential (module) espressopp.interaction.Potential.computeEnergy() (in module espressopp.interaction.Potential) espressopp.interaction.Potential.computeForce() (in module espressopp.interaction.Potential) espressopp.interaction.PotentialVSpherePair (module) espressopp.interaction.PotentialVSpherePair.computeEnergy() (in module espressopp.interaction.PotentialVSpherePair) espressopp.interaction.PotentialVSpherePair.computeForce() (in module espressopp.interaction.PotentialVSpherePair) espressopp.interaction.Quartic (module) espressopp.interaction.Quartic() (in module espressopp.interaction.Quartic) espressopp.interaction.ReactionFieldGeneralized (module) espressopp.interaction.ReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.ReactionFieldGeneralizedTI (module) espressopp.interaction.SelfVSphere() (in module espressopp.interaction.VSphereSelf) espressopp.interaction.SelfVSphere.getPotential() (in module espressopp.interaction.VSphereSelf) espressopp.interaction.SelfVSphere.setPotential() (in module espressopp.interaction.VSphereSelf) espressopp.interaction.SingleParticleHarmonicTrap() (in module espressopp.interaction.HarmonicTrap) espressopp.interaction.SingleParticleHarmonicTrap.setPotential() (in module espressopp.interaction.HarmonicTrap) espressopp.interaction.SingleParticleLennardJones93Wall() (in module espressopp.interaction.LennardJones93Wall) espressopp.interaction.SingleParticleLennardJones93Wall.setPotential() (in module espressopp.interaction.LennardJones93Wall) espressopp.interaction.SingleParticlePotential (module) espressopp.interaction.SingleParticlePotential.computeEnergy() (in module espressopp.interaction.SingleParticlePotential) espressopp.interaction.SingleParticlePotential.computeForce() (in module espressopp.interaction.SingleParticlePotential) espressopp.interaction.SmoothSquareWell (module) espressopp.interaction.SoftCosine (module) espressopp.interaction.SoftCosine() (in module espressopp.interaction.SoftCosine) espressopp.interaction.StillingerWeberPairTerm (module) espressopp.interaction.StillingerWeberPairTerm() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.StillingerWeberPairTermCapped (module) espressopp.interaction.StillingerWeberPairTermCapped() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.StillingerWeberTripleTerm (module) espressopp.interaction.StillingerWeberTripleTerm() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.Tabulated (module) espressopp.interaction.Tabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.TabulatedAngular (module) espressopp.interaction.TabulatedAngular() (in module espressopp.interaction.TabulatedAngular) espressopp.interaction.TabulatedDihedral (module) espressopp.interaction.TabulatedDihedral() (in module espressopp.interaction.TabulatedDihedral) espressopp.interaction.TersoffPairTerm (module) espressopp.interaction.TersoffPairTerm() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.TersoffTripleTerm (module) espressopp.interaction.VerletListAdressATHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressATHarmonic.getPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressATHarmonic.getVerletList() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressATHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressATLenJonesReacFieldGen() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLenJonesReacFieldGen.setPotential1() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLenJonesReacFieldGen.setPotential2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLennardJones.getPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLennardJones.getVerletList() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenHarmonic() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenHarmonic.setPotentialAT1() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenHarmonic.setPotentialAT2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenHarmonic.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenTab() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenTab.setPotentialAT1() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenTab.setPotentialAT2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATLJReacFieldGenTab.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressATReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListAdressATReactionFieldGeneralized.getPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListAdressATReactionFieldGeneralized.setPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListAdressCGHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressCGHarmonic.getPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressCGHarmonic.getVerletList() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressCGHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListAdressCGLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressCGLennardJones.getPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressCGLennardJones.getVerletList() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressCGLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressCGTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressCGTabulated.getPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressCGTabulated.getVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressCGTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJones.setPotentialAT() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJones.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJones2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJones2.setPotentialAT() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJones2.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJonesAutoBonds() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListAdressLennardJonesAutoBonds.setPotential() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListAdressLennardJonesCapped() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListAdressLennardJonesCapped.getPotentialAT() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListAdressLennardJonesCapped.getPotentialCG() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListAdressLennardJonesCapped.setPotentialAT() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListAdressLennardJonesCapped.setPotentialCG() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListAdressLennardJonesEnergyCapped() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListAdressLennardJonesEnergyCapped.getPotentialAT() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListAdressLennardJonesEnergyCapped.getPotentialCG() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListAdressLennardJonesEnergyCapped.setPotentialAT() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListAdressLennardJonesEnergyCapped.setPotentialCG() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListAdressLennardJonesGeneric() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListAdressLennardJonesGeneric.setPotentialAT() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListAdressLennardJonesGeneric.setPotentialCG() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListAdressLennardJonesGeneric2() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListAdressLennardJonesGeneric2.setPotentialAT() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListAdressLennardJonesGeneric2.setPotentialCG() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListAdressLennardJonesHarmonic() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJonesHarmonic.setPotentialAT() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLennardJonesHarmonic.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListAdressLJcos() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListAdressLJcos.setPotentialAT() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListAdressLJcos.setPotentialCG() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListAdressMorse() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListAdressMorse.setPotentialAT() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListAdressMorse.setPotentialCG() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListAdressReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListAdressReactionFieldGeneralized.setPotentialAT() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListAdressReactionFieldGeneralized.setPotentialCG() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListAdressStillingerWeberPairTerm() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListAdressStillingerWeberPairTerm.setPotentialAT() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListAdressStillingerWeberPairTerm.setPotentialCG() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListAdressStillingerWeberPairTermCapped() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListAdressStillingerWeberPairTermCapped.setPotentialAT() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListAdressStillingerWeberPairTermCapped.setPotentialCG() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListAdressTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressTabulated.setPotentialAT() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressTabulated.setPotentialCG() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListAdressZero() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListAdressZero.setFixedTupleList() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListAdressZero.setPotentialAT() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListAdressZero.setPotentialCG() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListCoulombRSpace() (in module espressopp.interaction.CoulombRSpace) espressopp.interaction.VerletListCoulombRSpace.getPotential() (in module espressopp.interaction.CoulombRSpace) espressopp.interaction.VerletListCoulombRSpace.getVerletList() (in module espressopp.interaction.CoulombRSpace) espressopp.interaction.VerletListCoulombRSpace.setPotential() (in module espressopp.interaction.CoulombRSpace) espressopp.interaction.VerletListCoulombTruncatedUniqueCharge() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.VerletListCoulombTruncatedUniqueCharge.getPotential() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.VerletListCoulombTruncatedUniqueCharge.setPotential() (in module espressopp.interaction.CoulombTruncatedUniqueCharge) espressopp.interaction.VerletListGravityTruncated() (in module espressopp.interaction.GravityTruncated) espressopp.interaction.VerletListGravityTruncated.getPotential() (in module espressopp.interaction.GravityTruncated) espressopp.interaction.VerletListGravityTruncated.getVerletList() (in module espressopp.interaction.GravityTruncated) espressopp.interaction.VerletListGravityTruncated.setPotential() (in module espressopp.interaction.GravityTruncated) espressopp.interaction.VerletListHadressATHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressATHarmonic.getPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressATHarmonic.getVerletList() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressATHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressATLenJonesReacFieldGen() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLenJonesReacFieldGen.setPotential1() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLenJonesReacFieldGen.setPotential2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLennardJones.getPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLennardJones.getVerletList() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenHarmonic() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenHarmonic.setPotentialAT1() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenHarmonic.setPotentialAT2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenHarmonic.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenTab() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenTab.setPotentialAT1() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenTab.setPotentialAT2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATLJReacFieldGenTab.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressATReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListHadressATReactionFieldGeneralized.getPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListHadressATReactionFieldGeneralized.setPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListHadressCGHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressCGHarmonic.getPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressCGHarmonic.getVerletList() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressCGHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHadressCGLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressCGLennardJones.getPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressCGLennardJones.getVerletList() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressCGLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressCGTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressCGTabulated.getPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressCGTabulated.getVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressCGTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJones.setPotentialAT() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJones.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJones2() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJones2.setPotentialAT() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJones2.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJonesAutoBonds() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListHadressLennardJonesAutoBonds.setPotential() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListHadressLennardJonesCapped() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListHadressLennardJonesCapped.getPotentialAT() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListHadressLennardJonesCapped.getPotentialCG() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListHadressLennardJonesCapped.setPotentialAT() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListHadressLennardJonesCapped.setPotentialCG() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListHadressLennardJonesEnergyCapped() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListHadressLennardJonesEnergyCapped.getPotentialAT() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListHadressLennardJonesEnergyCapped.getPotentialCG() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListHadressLennardJonesEnergyCapped.setPotentialAT() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListHadressLennardJonesEnergyCapped.setPotentialCG() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListHadressLennardJonesGeneric() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListHadressLennardJonesGeneric.setPotentialAT() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListHadressLennardJonesGeneric.setPotentialCG() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListHadressLennardJonesGeneric2() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListHadressLennardJonesGeneric2.setPotentialAT() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListHadressLennardJonesGeneric2.setPotentialCG() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListHadressLennardJonesHarmonic() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJonesHarmonic.setPotentialAT() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLennardJonesHarmonic.setPotentialCG() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListHadressLJcos() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListHadressLJcos.setPotentialAT() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListHadressLJcos.setPotentialCG() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListHadressMorse() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListHadressMorse.setPotentialAT() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListHadressMorse.setPotentialCG() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListHadressReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListHadressReactionFieldGeneralized.setPotentialAT() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListHadressReactionFieldGeneralized.setPotentialCG() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListHadressStillingerWeberPairTerm() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListHadressStillingerWeberPairTerm.setPotentialAT() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListHadressStillingerWeberPairTerm.setPotentialCG() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListHadressStillingerWeberPairTermCapped() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListHadressStillingerWeberPairTermCapped.setPotentialAT() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListHadressStillingerWeberPairTermCapped.setPotentialCG() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListHadressTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressTabulated.setPotentialAT() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressTabulated.setPotentialCG() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListHadressZero() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListHadressZero.setFixedTupleList() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListHadressZero.setPotentialAT() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListHadressZero.setPotentialCG() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListHarmonic() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHarmonic.getPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListHarmonic.setPotential() (in module espressopp.interaction.Harmonic) espressopp.interaction.VerletListLennardJones() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListLennardJones.getPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListLennardJones.getVerletList() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListLennardJones.setPotential() (in module espressopp.interaction.LennardJones) espressopp.interaction.VerletListLennardJonesAutoBonds() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListLennardJonesAutoBonds.getPotential() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListLennardJonesAutoBonds.getVerletList() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListLennardJonesAutoBonds.setPotential() (in module espressopp.interaction.LennardJonesAutoBonds) espressopp.interaction.VerletListLennardJonesCapped() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListLennardJonesCapped.getPotential() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListLennardJonesCapped.setPotential() (in module espressopp.interaction.LennardJonesCapped) espressopp.interaction.VerletListLennardJonesEnergyCapped() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListLennardJonesEnergyCapped.getPotential() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListLennardJonesEnergyCapped.setPotential() (in module espressopp.interaction.LennardJonesEnergyCapped) espressopp.interaction.VerletListLennardJonesExpand() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.VerletListLennardJonesExpand.getPotential() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.VerletListLennardJonesExpand.setPotential() (in module espressopp.interaction.LennardJonesExpand) espressopp.interaction.VerletListLennardJonesGeneric() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListLennardJonesGeneric.getPotential() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListLennardJonesGeneric.getVerletList() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListLennardJonesGeneric.setPotential() (in module espressopp.interaction.LennardJonesGeneric) espressopp.interaction.VerletListLennardJonesGromacs() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.VerletListLennardJonesGromacs.getPotential() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.VerletListLennardJonesGromacs.setPotential() (in module espressopp.interaction.LennardJonesGromacs) espressopp.interaction.VerletListLJcos() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListLJcos.getPotential() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListLJcos.getVerletList() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListLJcos.setPotential() (in module espressopp.interaction.LJcos) espressopp.interaction.VerletListMorse() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListMorse.getPotential() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListMorse.setPotential() (in module espressopp.interaction.Morse) espressopp.interaction.VerletListPIadressNoDriftTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.getFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.getNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.getSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.getVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.setFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.setNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.setSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressNoDriftTabulated.setVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.getFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.getNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.getSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.getVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.setFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.setNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.setPotentialCL() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.setPotentialQM() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.setSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulated.setVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.getFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.getNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.getSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.getVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.setFixedTupleList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.setNTrotter() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.setPotentialCL() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.setPotentialQM() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.setSpeedup() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListPIadressTabulatedLJ.setVerletList() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListReactionFieldGeneralized.getPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListReactionFieldGeneralized.setPotential() (in module espressopp.interaction.ReactionFieldGeneralized) espressopp.interaction.VerletListSoftCosine() (in module espressopp.interaction.SoftCosine) espressopp.interaction.VerletListSoftCosine.setPotential() (in module espressopp.interaction.SoftCosine) espressopp.interaction.VerletListStillingerWeberPairTerm() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListStillingerWeberPairTerm.getPotential() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListStillingerWeberPairTerm.getVerletList() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListStillingerWeberPairTerm.setPotential() (in module espressopp.interaction.StillingerWeberPairTerm) espressopp.interaction.VerletListStillingerWeberPairTermCapped() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListStillingerWeberPairTermCapped.getCaprad() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListStillingerWeberPairTermCapped.getPotential() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListStillingerWeberPairTermCapped.getVerletList() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListStillingerWeberPairTermCapped.setPotential() (in module espressopp.interaction.StillingerWeberPairTermCapped) espressopp.interaction.VerletListStillingerWeberTripleTerm() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.VerletListStillingerWeberTripleTerm.getPotential() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.VerletListStillingerWeberTripleTerm.getVerletListTriple() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.VerletListStillingerWeberTripleTerm.setPotential() (in module espressopp.interaction.StillingerWeberTripleTerm) espressopp.interaction.VerletListTabulated() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListTabulated.getPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListTabulated.setPotential() (in module espressopp.interaction.Tabulated) espressopp.interaction.VerletListTersoffPairTerm() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.VerletListTersoffPairTerm.getPotential() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.VerletListTersoffPairTerm.getVerletList() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.VerletListTersoffPairTerm.setPotential() (in module espressopp.interaction.TersoffPairTerm) espressopp.interaction.VerletListTersoffTripleTerm() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.VerletListTersoffTripleTerm.getPotential() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.VerletListTersoffTripleTerm.getVerletListTriple() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.VerletListTersoffTripleTerm.setPotential() (in module espressopp.interaction.TersoffTripleTerm) espressopp.interaction.VerletListVSpherePair() (in module espressopp.interaction.VSpherePair) espressopp.interaction.VerletListVSpherePair.getPotential() (in module espressopp.interaction.VSpherePair) espressopp.interaction.VerletListVSpherePair.getVerletList() (in module espressopp.interaction.VSpherePair) espressopp.interaction.VerletListVSpherePair.setPotential() (in module espressopp.interaction.VSpherePair) espressopp.interaction.VerletListZero() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListZero.getPotential() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListZero.setFixedTupleList() (in module espressopp.interaction.Zero) espressopp.interaction.VerletListZero.setPotential() (in module espressopp.interaction.Zero) espressopp.interaction.VSpherePair (module) espressopp.interaction.VSpherePair() (in module espressopp.interaction.VSpherePair) espressopp.interaction.VSphereSelf (module) espressopp.interaction.VSphereSelf() (in module espressopp.interaction.VSphereSelf) espressopp.interaction.Zero (module) espressopp.interaction.Zero() (in module espressopp.interaction.Zero) espressopp.io.DumpGRO (module) espressopp.io.DumpGRO() (in module espressopp.io.DumpGRO) espressopp.io.DumpGRO.dump() (in module espressopp.io.DumpGRO) espressopp.io.DumpGROAdress (module) espressopp.io.DumpGROAdress() (in module espressopp.io.DumpGROAdress) espressopp.io.DumpGROAdress.dump() (in module espressopp.io.DumpGROAdress) espressopp.io.DumpH5MD (module) espressopp.io.DumpH5MD() (in module espressopp.io.DumpH5MD) espressopp.io.DumpXYZ (module) espressopp.io.DumpXYZ() (in module espressopp.io.DumpXYZ) espressopp.io.DumpXYZ.dump() (in module espressopp.io.DumpXYZ) espressopp.MissingFixedPairList() (in module espressopp.Exceptions) espressopp.MultiSystem (module) espressopp.MultiSystem() (in module espressopp.MultiSystem) espressopp.MultiSystem.beginSystemDefinition() (in module espressopp.MultiSystem) espressopp.MultiSystem.runAnalysisNPart() (in module espressopp.MultiSystem) espressopp.MultiSystem.runAnalysisPotential() (in module espressopp.MultiSystem) espressopp.MultiSystem.runAnalysisTemperature() (in module espressopp.MultiSystem) espressopp.MultiSystem.runIntegrator() (in module espressopp.MultiSystem) espressopp.MultiSystem.setAnalysisNPart() (in module espressopp.MultiSystem) espressopp.MultiSystem.setAnalysisPotential() (in module espressopp.MultiSystem) espressopp.MultiSystem.setAnalysisTemperature() (in module espressopp.MultiSystem) espressopp.MultiSystem.setIntegrator() (in module espressopp.MultiSystem) espressopp.ParallelTempering (module) espressopp.ParallelTempering() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.endDefiningSystem() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.exchange() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.getNumberOfCPUsPerSystem() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.getNumberOfSystems() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.run() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.setAnalysisE() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.setAnalysisNPart() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.setAnalysisT() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.setIntegrator() (in module espressopp.ParallelTempering) espressopp.ParallelTempering.startDefiningSystem() (in module espressopp.ParallelTempering) espressopp.Particle (class in espressopp.Particle) (module) espressopp.ParticleAccess (module) espressopp.ParticleAccess.perform_action() (in module espressopp.ParticleAccess) espressopp.ParticleDoesNotExistHere() (in module espressopp.Exceptions) espressopp.ParticleGroup (module) espressopp.ParticleGroup() (in module espressopp.ParticleGroup) espressopp.ParticleGroup.add() (in module espressopp.ParticleGroup) espressopp.ParticleGroup.has() (in module espressopp.ParticleGroup) espressopp.ParticleGroup.show() (in module espressopp.ParticleGroup) espressopp.ParticleGroup.size() (in module espressopp.ParticleGroup) espressopp.pmi (module) espressopp.Quaternion (module) espressopp.Real3D (module) espressopp.RealND (module) espressopp.standard_system.Default (module) espressopp.standard_system.KGMelt (module) espressopp.standard_system.KGMelt() (in module espressopp.standard_system.KGMelt) espressopp.standard_system.LennardJones (module) espressopp.standard_system.LennardJones() (in module espressopp.standard_system.LennardJones) espressopp.standard_system.Minimal (module) espressopp.standard_system.Minimal() (in module espressopp.standard_system.Minimal) espressopp.standard_system.PolymerMelt (module) espressopp.standard_system.PolymerMelt() (in module espressopp.standard_system.PolymerMelt) espressopp.storage.DomainDecomposition (module) espressopp.storage.DomainDecomposition() (in module espressopp.storage.DomainDecomposition) espressopp.storage.DomainDecomposition.getCellGrid() (in module espressopp.storage.DomainDecomposition) espressopp.storage.DomainDecomposition.getNodeGrid() (in module espressopp.storage.DomainDecomposition) espressopp.storage.DomainDecompositionAdress (module) espressopp.storage.DomainDecompositionAdress() (in module espressopp.storage.DomainDecompositionAdress) espressopp.storage.DomainDecompositionNonBlocking (module) espressopp.storage.DomainDecompositionNonBlocking() (in module espressopp.storage.DomainDecompositionNonBlocking) espressopp.storage.Storage (module) espressopp.storage.Storage.addAdrATParticle() (in module espressopp.storage.Storage) espressopp.storage.Storage.addParticle() (in module espressopp.storage.Storage) espressopp.storage.Storage.addParticles() (in module espressopp.storage.Storage) espressopp.storage.Storage.clearSavedPositions() (in module espressopp.storage.Storage) espressopp.storage.Storage.getParticle() (in module espressopp.storage.Storage) espressopp.storage.Storage.getRealParticleIDs() (in module espressopp.storage.Storage) espressopp.storage.Storage.modifyParticle() (in module espressopp.storage.Storage) espressopp.storage.Storage.particleExists() (in module espressopp.storage.Storage) espressopp.storage.Storage.printRealParticles() (in module espressopp.storage.Storage) espressopp.storage.Storage.removeAllParticles() (in module espressopp.storage.Storage) espressopp.storage.Storage.removeParticle() (in module espressopp.storage.Storage) espressopp.storage.Storage.restorePositions() (in module espressopp.storage.Storage) espressopp.storage.Storage.savePositions() (in module espressopp.storage.Storage) espressopp.storage.Storage.setFixedTuplesAdress() (in module espressopp.storage.Storage) espressopp.System (module) espressopp.System() (in module espressopp.System) espressopp.System.addInteraction() (in module espressopp.System) espressopp.System.getAllInteractions() (in module espressopp.System) espressopp.System.getInteraction() (in module espressopp.System) espressopp.System.getNumberOfInteractions() (in module espressopp.System) espressopp.System.removeInteraction() (in module espressopp.System) espressopp.System.removeInteractionByName() (in module espressopp.System) espressopp.System.scaleVolume() (in module espressopp.System) espressopp.System.setTrace() (in module espressopp.System) espressopp.Tensor (module) espressopp.toInt3D() (in module espressopp.Int3D) espressopp.toInt3DFromVector() (in module espressopp.Int3D) espressopp.tools.analyse (module) espressopp.tools.applyBoreschRestraints() (in module espressopp.tools.prepareComplexMolecules) espressopp.tools.decomp (module) espressopp.tools.DumpConfigurations (module) espressopp.tools.espresso_old (module) espressopp.tools.findConstrainedBonds() (in module espressopp.tools.prepareComplexMolecules) espressopp.tools.getInternalNonbondedInteractions() (in module espressopp.tools.prepareComplexMolecules) espressopp.tools.gromacs (module) espressopp.tools.info (module) espressopp.tools.io_extended (module) espressopp.tools.lammps (module) espressopp.tools.lattice (module) espressopp.tools.pathintegral (module) espressopp.tools.pdb (module) espressopp.tools.pdbread() (in module espressopp.tools.pdb) espressopp.tools.pdbwrite() (in module espressopp.tools.pdb) espressopp.tools.povwrite (module) espressopp.tools.prepareAdress (module) espressopp.tools.prepareComplexMolecules (module) espressopp.tools.psf (module) espressopp.tools.psfread() (in module espressopp.tools.psf) espressopp.tools.psfwrite() (in module espressopp.tools.psf) espressopp.tools.readSimpleSystem() (in module espressopp.tools.prepareComplexMolecules) espressopp.tools.replicate (module) espressopp.tools.tabulated (module) espressopp.tools.timers (module) espressopp.tools.topology (module) espressopp.tools.topology_helper (module) espressopp.tools.units (module) espressopp.tools.velocities (module) espressopp.tools.vmd (module) espressopp.tools.warmup (module) espressopp.toReal3D() (in module espressopp.Real3D) espressopp.toReal3DFromVector() (in module espressopp.Real3D) espressopp.toRealND() (in module espressopp.RealND) espressopp.toRealNDFromVector() (in module espressopp.RealND) espressopp.UnknownParticleProperty() (in module espressopp.Exceptions) espressopp.VerletList (module) espressopp.VerletList() (in module espressopp.VerletList) espressopp.VerletList.exclude() (in module espressopp.VerletList) espressopp.VerletList.getAllPairs() (in module espressopp.VerletList) espressopp.VerletList.localSize() (in module espressopp.VerletList) espressopp.VerletList.totalSize() (in module espressopp.VerletList) espressopp.VerletListAdress (module) espressopp.VerletListAdress() (in module espressopp.VerletListAdress) espressopp.VerletListAdress.addAdrParticles() (in module espressopp.VerletListAdress) espressopp.VerletListAdress.exclude() (in module espressopp.VerletListAdress) espressopp.VerletListAdress.rebuild() (in module espressopp.VerletListAdress) espressopp.VerletListAdress.totalSize() (in module espressopp.VerletListAdress) espressopp.VerletListTriple (module) espressopp.VerletListTriple() (in module espressopp.VerletListTriple) espressopp.VerletListTriple.exclude() (in module espressopp.VerletListTriple) espressopp.VerletListTriple.getAllTriples() (in module espressopp.VerletListTriple) espressopp.VerletListTriple.localSize() (in module espressopp.VerletListTriple) espressopp.VerletListTriple.totalSize() (in module espressopp.VerletListTriple) espressopp.Version (module) espressopp.Version() (in module espressopp.Version) espressopppp.integrator.Rattle() (in module espressopp.integrator.Rattle) espressopppp.integrator.Rattle.addConstrainedBonds() (in module espressopp.integrator.Rattle) espressopppp.interaction.CoulombTruncated() (in module espressopp.interaction.CoulombTruncated) espressopppp.interaction.FixedPairListTypesCoulombTruncated() (in module espressopp.interaction.CoulombTruncated) espressopppp.interaction.FixedPairListTypesCoulombTruncated.setPotential() (in module espressopp.interaction.CoulombTruncated) espressopppp.interaction.LennardJonesSoftcoreTI() (in module espressopp.interaction.LennardJonesSoftcoreTI) espressopppp.interaction.LennardJonesSoftcoreTI.addPids() (in module espressopp.interaction.LennardJonesSoftcoreTI) espressopppp.interaction.ReactionFieldGeneralizedTI() (in module espressopp.interaction.ReactionFieldGeneralizedTI) espressopppp.interaction.ReactionFieldGeneralizedTI.addPids() (in module espressopp.interaction.ReactionFieldGeneralizedTI) espressopppp.interaction.VerletListAdressLennardJones() (in module espressopp.interaction.LennardJonesSoftcoreTI) espressopppp.interaction.VerletListAdressLennardJones.setPotentialAT() (in module espressopp.interaction.LennardJonesSoftcoreTI) espressopppp.interaction.VerletListAdressLennardJones.setPotentialCG() (in module espressopp.interaction.LennardJonesSoftcoreTI) espressopppp.interaction.VerletListAdressReactionFieldGeneralized() (in module espressopp.interaction.ReactionFieldGeneralizedTI) espressopppp.interaction.VerletListAdressReactionFieldGeneralized.setPotentialAT() (in module espressopp.interaction.ReactionFieldGeneralizedTI) espressopppp.interaction.VerletListAdressReactionFieldGeneralized.setPotentialCG() (in module espressopp.interaction.ReactionFieldGeneralizedTI) espressopppp.interaction.VerletListCoulombTruncated() (in module espressopp.interaction.CoulombTruncated) espressopppp.interaction.VerletListCoulombTruncated.getPotential() (in module espressopp.interaction.CoulombTruncated) espressopppp.interaction.VerletListCoulombTruncated.setPotential() (in module espressopp.interaction.CoulombTruncated) euler_from_matrix() (in module espressopp.external.transformations) euler_from_quaternion() (in module espressopp.external.transformations) euler_matrix() (in module espressopp.external.transformations) exec_() (in module espressopp.pmi)

F

f_max (in module espressopp.integrator.MinimizeEnergy) fastreadxyz() (in module espressopp.tools.DumpConfigurations) fastwritexyz() (in module espressopp.tools.DumpConfigurations) fastwritexyz_standard() (in module espressopp.tools.DumpConfigurations)

final_info() (in module espressopp.tools.analyse) finalizeWorkers() (in module espressopp.pmi) FixedQuadrupleListDihedralHarmonicLocal (class in espressopp.interaction.DihedralHarmonic) FixedQuadrupleListDihedralHarmonicNCosLocal (class in espressopp.interaction.DihedralHarmonicNCos) FixedTripleListPIadressTabulatedAngularLocal (class in espressopp.interaction.TabulatedAngular)

G

gaussian() (in module espressopp.tools.velocities) getAllBonds() (in module espressopp.tools.info) getAllParticles() (in module espressopp.tools.info) getconstrain() (espressopp.external.transformations.Arcball method) getFixedPairList() (espressopp.interaction.FENE.espressopp.interaction.FixedPairListFENE method) (espressopp.interaction.FENECapped.espressopp.interaction.FixedPairListFENECapped method) getFixedTripleList() (espressopp.interaction.AngularCosineSquared.espressopp.interaction.FixedTripleListAngularCosineSquared method) (espressopp.interaction.AngularHarmonic.espressopp.interaction.FixedTripleListAngularHarmonic method)

getFoldedPosition() (espressopp.bc.BC.espressopp.bc.BC method) getLBMom() (espressopp.integrator.LatticeBoltzmann.espressopp.integrator.LatticeBoltzmann method) getMinimumImageVector() (espressopp.bc.BC.espressopp.bc.BC method) getPotential() (espressopp.interaction.FENE.espressopp.interaction.FixedPairListFENE method) (espressopp.interaction.FENECapped.espressopp.interaction.FixedPairListFENECapped method) getRandomPos() (espressopp.bc.BC.espressopp.bc.BC method) getUnfoldedPosition() (espressopp.bc.BC.espressopp.bc.BC method)

H

Harmonic (class in espressopp.interaction.Harmonic)

HarmonicTrap (class in espressopp.interaction.HarmonicTrap)

I

identity_matrix() (in module espressopp.external.transformations) import_() (in module espressopp.pmi) info() (in module espressopp.tools.analyse)

inverse_matrix() (in module espressopp.external.transformations) invoke() (in module espressopp.pmi) is_same_transform() (in module espressopp.external.transformations)

K

keepLBDump() (espressopp.integrator.LatticeBoltzmann.espressopp.integrator.LatticeBoltzmann method)

L

LennardJones (class in espressopp.interaction.LennardJones) LennardJones93Wall (class in espressopp.interaction.LennardJones93Wall) LennardJonesAutoBonds (class in espressopp.interaction.LennardJonesAutoBonds) LennardJonesCapped (class in espressopp.interaction.LennardJonesCapped) LennardJonesEnergyCapped (class in espressopp.interaction.LennardJonesEnergyCapped)

LennardJonesExpand (class in espressopp.interaction.LennardJonesExpand) LennardJonesGeneric (class in espressopp.interaction.LennardJonesGeneric) LennardJonesGromacs (class in espressopp.interaction.LennardJonesGromacs) LennardJonesSoftcoreTI (class in espressopp.interaction.LennardJonesSoftcoreTI) LJcos (class in espressopp.interaction.LJcos) locateItem() (espressopp.esutil.Collectives.espressopp.esutil method)

M

matrix() (espressopp.external.transformations.Arcball method) MirrorLennardJones (class in espressopp.interaction.MirrorLennardJones)

Morse (class in espressopp.interaction.Morse) MultiSystem (class in espressopp.MultiSystem) MultiSystemLocal (class in espressopp.MultiSystem)

N

next() (espressopp.external.transformations.Arcball method)

NPartSubregionLocal (class in espressopp.analysis.NPartSubregion)

O

OPLS (class in espressopp.interaction.OPLS)

orthogonalization_matrix() (in module espressopp.external.transformations) OrthorhombicBC() (espressopp.bc.OrthorhombicBC.espressopp.bc method)

P

ParticleLocal (class in espressopp.Particle) PIAdressIntegratorLocal (class in espressopp.integrator.PIAdressIntegrator) place() (espressopp.external.transformations.Arcball method)

polymerRW() (in module espressopp.tools.topology) projection_from_matrix() (in module espressopp.external.transformations) projection_matrix() (in module espressopp.external.transformations) Proxy (class in espressopp.pmi)

Q

Quartic (class in espressopp.interaction.Quartic) quaternion_about_axis() (in module espressopp.external.transformations) quaternion_conjugate() (in module espressopp.external.transformations) quaternion_from_euler() (in module espressopp.external.transformations) quaternion_from_matrix() (in module espressopp.external.transformations)

quaternion_imag() (in module espressopp.external.transformations) quaternion_inverse() (in module espressopp.external.transformations) quaternion_matrix() (in module espressopp.external.transformations) quaternion_multiply() (in module espressopp.external.transformations) quaternion_real() (in module espressopp.external.transformations) quaternion_slerp() (in module espressopp.external.transformations)

R

RadGyrXProfilePILocal (class in espressopp.analysis.RadGyrXProfilePI) random_quaternion() (in module espressopp.external.transformations) random_rotation_matrix() (in module espressopp.external.transformations) random_vector() (in module espressopp.external.transformations) ReactionFieldGeneralized (class in espressopp.interaction.ReactionFieldGeneralized) ReactionFieldGeneralizedTI (class in espressopp.interaction.ReactionFieldGeneralizedTI) read() (in module espressopp.tools.espresso_old) (in module espressopp.tools.gromacs) readxyz() (in module espressopp.tools.DumpConfigurations)

readxyzr() (in module espressopp.tools.DumpConfigurations) receive() (in module espressopp.pmi) reduce() (in module espressopp.pmi) reflection_from_matrix() (in module espressopp.external.transformations) reflection_matrix() (in module espressopp.external.transformations) registerAtExit() (in module espressopp.pmi) replicate() (in module espressopp.tools.replicate) rotation_from_matrix() (in module espressopp.external.transformations) rotation_matrix() (in module espressopp.external.transformations)

S

saveLBConf() (espressopp.integrator.LatticeBoltzmann.espressopp.integrator.LatticeBoltzmann method) scale_from_matrix() (in module espressopp.external.transformations) scale_matrix() (in module espressopp.external.transformations) setaxes() (espressopp.external.transformations.Arcball method) setBoxL() (espressopp.bc.OrthorhombicBC.espressopp.bc.OrthorhombicBC method) (espressopp.bc.SlabBC.espressopp.bc.SlabBC method) setconstrain() (espressopp.external.transformations.Arcball method) setFixedPairList() (espressopp.interaction.FENE.espressopp.interaction.FixedPairListFENE method) (espressopp.interaction.FENECapped.espressopp.interaction.FixedPairListFENECapped method) setForce() (espressopp.integrator.LBInit.espressopp.integrator.LBInit method) setLBMom() (espressopp.integrator.LatticeBoltzmann.espressopp.integrator.LatticeBoltzmann method) setLennardJones14Interactions() (in module espressopp.tools.gromacs) setLennardJonesInteractions() (in module espressopp.tools.gromacs) setLennardJonesInteractionsTI() (in module espressopp.tools.gromacs) setPotential() (espressopp.interaction.AngularCosineSquared.espressopp.interaction.FixedTripleListAngularCosineSquared method) (espressopp.interaction.AngularHarmonic.espressopp.interaction.FixedTripleListAngularHarmonic method) (espressopp.interaction.FENE.espressopp.interaction.FixedPairListFENE method) (espressopp.interaction.FENECapped.espressopp.interaction.FixedPairListFENECapped method)

setTabulatedInteractions() (in module espressopp.tools.gromacs) shear_from_matrix() (in module espressopp.external.transformations) shear_matrix() (in module espressopp.external.transformations) show() (in module espressopp.tools.timers) SlabBC() (espressopp.bc.SlabBC.espressopp.bc method) SmoothSquareWell (class in espressopp.interaction.SmoothSquareWell) SoftCosine (class in espressopp.interaction.SoftCosine) startWorkerLoop() (in module espressopp.pmi) step (in module espressopp.integrator.MinimizeEnergy) StillingerWeberPairTerm (class in espressopp.interaction.StillingerWeberPairTerm) StillingerWeberPairTermCapped (class in espressopp.interaction.StillingerWeberPairTermCapped) StillingerWeberTripleTerm (class in espressopp.interaction.StillingerWeberTripleTerm) stopWorkerLoop() (in module espressopp.pmi) SubregionTrackingLocal (class in espressopp.analysis.SubregionTracking) superimposition_matrix() (in module espressopp.external.transformations) sync() (in module espressopp.pmi)

T

Tabulated (class in espressopp.interaction.Tabulated) TabulatedAngular (class in espressopp.interaction.TabulatedAngular) TabulatedDihedral (class in espressopp.interaction.TabulatedDihedral) TersoffPairTerm (class in espressopp.interaction.TersoffPairTerm) toInt3D() (in module espressopp.Int3D) toInt3DFromVector() (in module espressopp.Int3D) toQuaternion() (in module espressopp.Quaternion) toQuaternionFromVector() (in module espressopp.Quaternion)

toReal3D() (in module espressopp.Real3D) toReal3DFromVector() (in module espressopp.Real3D) toRealND() (in module espressopp.RealND) toRealNDFromVector() (in module espressopp.RealND) toTensor() (in module espressopp.Tensor) toTensorFromVector() (in module espressopp.Tensor) translation_from_matrix() (in module espressopp.external.transformations) translation_matrix() (in module espressopp.external.transformations)

U

unit_vector() (in module espressopp.external.transformations)

UserError

V

vector_norm() (in module espressopp.external.transformations) vector_product() (in module espressopp.external.transformations)

VSpherePair (class in espressopp.interaction.VSpherePair) VSphereSelf (class in espressopp.interaction.VSphereSelf)

W

warmup() (in module espressopp.tools.warmup)

writeTabFile() (in module espressopp.tools.tabulated) writexyz() (in module espressopp.tools.DumpConfigurations)

X

xyzfilewrite() (in module espressopp.tools.DumpConfigurations)

Z

Zero (class in espressopp.interaction.Zero)