Hierarchy For All Packages

Package Hierarchies:

• etomica,
• etomica.action,
• etomica.action.activity,
• etomica.action.controller,
• etomica.AlkaneEH,
• etomica.association,
• etomica.association.AceticAcid,
• etomica.association.GCPMWater,
• etomica.atom,
• etomica.atom.iterator,
• etomica.box,
• etomica.cavity,
• etomica.chem.electrostatics,
• etomica.chem.elements,
• etomica.compatibility,
• etomica.config,
• etomica.data,
• etomica.data.histogram,
• etomica.data.history,
• etomica.data.meter,
• etomica.data.types,
• etomica.dcvgcmd,
• etomica.dielectric,
• etomica.dimer,
• etomica.eam,
• etomica.eigenstuff,
• etomica.exception,
• etomica.freeenergy.npath,
• etomica.graph.engine,
• etomica.graph.engine.impl,
• etomica.graph.isomorphism,
• etomica.graph.iterators,
• etomica.graph.iterators.filters,
• etomica.graph.model,
• etomica.graph.model.comparators,
• etomica.graph.model.impl,
• etomica.graph.operations,
• etomica.graph.property,
• etomica.graph.traversal,
• etomica.graph.util,
• etomica.graph.view.rasterizer,
• etomica.graph.viewer,
• etomica.graphics,
• etomica.heVLE,
• etomica.integrator,
• etomica.integrator.mcmove,
• etomica.interfacial,
• etomica.kmc,
• etomica.lattice,
• etomica.lattice.crystal,
• etomica.liquidLJ,
• etomica.mappedRdf,
• etomica.mappedvirial,
• etomica.math,
• etomica.math.discrete,
• etomica.math.function,
• etomica.math.geometry,
• etomica.math.geometry.coordinate,
• etomica.math.numerical,
• etomica.meta,
• etomica.meta.annotations,
• etomica.meta.javadoc,
• etomica.meta.properties,
• etomica.meta.serializers,
• etomica.meta.wrappers,
• etomica.metastable,
• etomica.models.clathrates,
• etomica.models.co2,
• etomica.models.nitrogen,
• etomica.models.OPLS,
• etomica.models.rowley,
• etomica.models.traPPE,
• etomica.models.water,
• etomica.modifier,
• etomica.modules,
• etomica.modules.adsorption,
• etomica.modules.catalysis,
• etomica.modules.chainequilibrium,
• etomica.modules.clustergenerator,
• etomica.modules.colloid,
• etomica.modules.crystalviewer,
• etomica.modules.dcvgcmd,
• etomica.modules.droplet,
• etomica.modules.ensembles,
• etomica.modules.glass,
• etomica.modules.insertion,
• etomica.modules.interfacial,
• etomica.modules.ljmd,
• etomica.modules.materialfracture,
• etomica.modules.mu,
• etomica.modules.multiharmonic,
• etomica.modules.multiharmonic.mbar,
• etomica.modules.multiharmonic.overlap,
• etomica.modules.multiharmonic.umbrella,
• etomica.modules.nucleation,
• etomica.modules.osmosis,
• etomica.modules.pistoncylinder,
• etomica.modules.reactionequilibrium,
• etomica.modules.rheology,
• etomica.modules.rosmosis,
• etomica.modules.sam,
• etomica.modules.selfassembly,
• etomica.modules.statistics,
• etomica.modules.swmd,
• etomica.modules.vle,
• etomica.molecule,
• etomica.molecule.iterator,
• etomica.nbr,
• etomica.nbr.cell,
• etomica.nbr.cell.molecule,
• etomica.nbr.list,
• etomica.nbr.list.molecule,
• etomica.nbr.molecule,
• etomica.nbr.site,
• etomica.normalmode,
• etomica.normalmode.nptdemo,
• etomica.osmoticvirial,
• etomica.overlap,
• etomica.parser,
• etomica.polydisperseHS,
• etomica.potential,
• etomica.rotation,
• etomica.server,
• etomica.server.core.construction,
• etomica.server.dao,
• etomica.server.health,
• etomica.server.representations,
• etomica.server.resources,
• etomica.server.resources.data,
• etomica.server.serializers,
• etomica.simulation,
• etomica.simulation.prototypes,
• etomica.space,
• etomica.space1d,
• etomica.space2d,
• etomica.space3d,
• etomica.spaceNd,
• etomica.species,
• etomica.spin.heisenberg,
• etomica.spin.ising,
• etomica.starpolymer,
• etomica.statmech,
• etomica.surfacetension,
• etomica.tests,
• etomica.tmmc,
• etomica.units,
• etomica.units.dimensions,
• etomica.units.gui,
• etomica.units.systems,
• etomica.util,
• etomica.util.collections,
• etomica.util.numerical,
• etomica.util.random,
• etomica.veos,
• etomica.veos.bigdecimal,
• etomica.virial,
• etomica.virial.cluster,
• etomica.virial.GUI,
• etomica.virial.GUI.components,
• etomica.virial.GUI.containers,
• etomica.virial.GUI.controllers,
• etomica.virial.GUI.models,
• etomica.virial.GUI.views,
• etomica.virial.overlap,
• etomica.virial.paralleltempering,
• etomica.virial.simulations,
• etomica.zeolite,
• g3dsys.control,
• g3dsys.images,
• org.jmol.api,
• org.jmol.awt,
• org.jmol.constant,
• org.jmol.g3d,
• org.jmol.script,
• org.jmol.util,
• org.jmol.viewer

Class Hierarchy

• java.lang.Object
  • etomica.graph.model.impl.AbstractBitmap (implements etomica.graph.model.Bitmap)
    • etomica.graph.model.impl.BitmapOfLong
    • etomica.graph.model.impl.BitmapOfLongVector
  • java.util.AbstractCollection<E> (implements java.util.Collection<E>)
    • java.util.AbstractList<E> (implements java.util.List<E>)
      • etomica.atom.AtomArrayList (implements etomica.atom.IAtomList, java.util.RandomAccess)
      • etomica.atom.AtomListFromArray (implements etomica.atom.IAtomList)
      • etomica.atom.AtomPair (implements etomica.atom.IAtomList, java.util.RandomAccess)
      • etomica.box.AtomSetAllMolecules (implements etomica.molecule.IMoleculeList)
      • etomica.atom.AtomSetSinglet (implements etomica.atom.IAtomList)
      • etomica.molecule.MoleculeArrayList (implements etomica.molecule.IMoleculeList, java.util.RandomAccess)
      • etomica.molecule.MoleculePair (implements etomica.molecule.IMoleculeList, java.util.RandomAccess)
      • etomica.molecule.MoleculeSetSinglet (implements etomica.molecule.IMoleculeList)
  • java.util.AbstractMap<K,V> (implements java.util.Map<K,V>)
    • java.util.concurrent.ConcurrentHashMap<K,V> (implements java.util.concurrent.ConcurrentMap<K,V>, java.io.Serializable)
      • etomica.server.dao.DataStreamStore
      • etomica.server.dao.SimulationStore
  • etomica.graph.isomorphism.AbstractSearchState (implements etomica.graph.isomorphism.SearchState)
    • etomica.graph.isomorphism.UllmanSearchState
    • etomica.graph.isomorphism.VF2SearchState
    • etomica.graph.isomorphism.VFSearchState
  • javax.swing.table.AbstractTableModel (implements java.io.Serializable, javax.swing.table.TableModel)
    • etomica.graphics.DeviceTableModelGeneric
    • etomica.virial.GUI.models.ModelMoleculeListDisplayTable
    • etomica.virial.GUI.models.ModelMoleculeListDisplayTable_new
    • etomica.virial.GUI.models.ModelPotParamDisplayTable
  • etomica.graph.traversal.AbstractTraversal (implements etomica.graph.traversal.Traversal)
    • etomica.graph.traversal.Biconnected
      • etomica.graph.traversal.BiconectedNodalPoint
    • etomica.graph.traversal.BreadthFirst
    • etomica.graph.traversal.DepthFirst
  • etomica.data.AccumulatorAverage.StatType
  • etomica.data.AccumulatorAverageBlockless.AllData
  • etomica.data.AccumulatorAverageBlockless.StatType
  • etomica.data.AccumulatorAverageBlocklessSlim.StatType
  • etomica.modules.multiharmonic.overlap.AccumulatorOverlapAverageUa2 (implements etomica.data.IDataSink)
  • etomica.modules.glass.AccumulatorPTensor (implements etomica.data.DataSourceIndependent, etomica.data.IDataSink, etomica.data.IDataSource)
  • etomica.modules.glass.AccumulatorPTensor.TemperatureSink (implements etomica.data.IDataSink)
  • etomica.models.OPLS.AceticAcidModPotentialHelper
  • etomica.models.OPLS.AceticAcidPotentialHelper
  • etomica.virial.GUI.components.ACollectionBondedPotential
    • etomica.virial.GUI.components.CollectionBondedPotentialAlcohols
    • etomica.virial.GUI.components.CollectionBondedPotentialAlkanes
  • etomica.graphics.ActionConfigWindow (implements etomica.action.IAction)
  • etomica.graphics.ActionGraphic (implements java.awt.event.ActionListener, etomica.action.IAction, java.io.Serializable)
  • etomica.action.ActionGroupSeries (implements etomica.action.ActionGroup)
  • etomica.graphics.ActionHistoryWindow (implements etomica.action.IAction)
  • etomica.action.ActionIntegrate (implements etomica.action.IAction)
  • etomica.action.ActionMinimizeEnergy (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.action.IAction)
  • etomica.action.ActionMinimizeEnergy.MyForceTorque (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable)
  • etomica.modules.pistoncylinder.ActionPistonUpdate (implements etomica.action.IAction)
  • etomica.surfacetension.ActionRecenter (implements etomica.action.IAction)
  • etomica.action.ActionToggle (implements etomica.action.IAction, java.io.Serializable)
  • etomica.graphics.ActionVelocityWindow (implements etomica.action.IAction)
  • etomica.action.controller.Activity
    • etomica.action.activity.ActivityIntegrate
  • etomica.math.numerical.AkimaSpline
  • etomica.math.numerical.AkimaSplineSmoother
    • etomica.math.numerical.AkimaSplineSmootherDy
  • etomica.math.numerical.AkimaSplineSmootherApp
  • etomica.math.numerical.AkimaSplineSmootherApp.PlotAction (implements etomica.action.IAction)
  • etomica.math.numerical.AkimaSplineSmootherDyApp
  • etomica.math.numerical.AkimaSplineSmootherDyApp.PlotAction (implements etomica.action.IAction)
  • etomica.math.numerical.AkimaSplineSmootherMain
  • etomica.graph.operations.AllIsomorphs (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.AllIsomorphs.AllIsomorphsParameters (implements etomica.graph.operations.Parameters)
  • etomica.atom.iterator.ANIntergroupCoupled (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.atom.iterator.ANIntergroupExchange (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.atom.iterator.ANIntragroupExchange (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.nbr.cell.Api1ACell (implements etomica.nbr.cell.AtomsetIteratorCellular, etomica.atom.iterator.AtomsetIteratorDirectable, etomica.atom.iterator.AtomsetIteratorTargetable)
  • etomica.nbr.site.Api1ASite (implements etomica.atom.iterator.AtomsetIteratorPDT, java.io.Serializable)
  • etomica.atom.iterator.ApiBuilder
  • etomica.modules.pistoncylinder.ApiFilteredCylinder.AtomFilterInCylinder
  • etomica.atom.iterator.ApiIndexList (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.atom.iterator.ApiInnerVariable (implements etomica.atom.iterator.AtomLeafsetIterator, java.io.Serializable)
  • etomica.atom.iterator.ApiInterArrayList (implements etomica.atom.iterator.AtomLeafsetIterator, java.io.Serializable)
  • etomica.atom.iterator.ApiIntergroup (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
    • etomica.atom.iterator.ApiIntergroupCoupled
    • etomica.atom.iterator.ApiIntergroupExchange
    • etomica.atom.iterator.ApiIntergroupIntraSpecies
  • etomica.atom.iterator.ApiIntraArrayList (implements etomica.atom.iterator.AtomLeafsetIterator, java.io.Serializable)
    • etomica.atom.iterator.ApiLeafAtoms (implements etomica.atom.iterator.AtomsetIteratorBoxDependent)
      • etomica.modules.pistoncylinder.ApiFilteredCylinder (implements etomica.atom.iterator.AtomsetIteratorBoxDependent)
  • etomica.atom.iterator.ApiIntragroup (implements etomica.atom.iterator.AtomsetIteratorBasisDependent, etomica.atom.iterator.AtomsetIteratorDirectable, java.io.Serializable)
  • etomica.virial.GUI.controllers.AppControllerMixtureBuilder
  • io.dropwizard.Application<T>
    • etomica.server.EtomicaServer
  • etomica.virial.GUI.ApplicationMixtureBuilder
  • etomica.virial.GUI.models.AppModelMixtureBuilder
  • etomica.virial.GUI.views.AppViewMixtureBuilder
  • etomica.normalmode.ArrayA2B
  • etomica.normalmode.ArrayB2A
  • etomica.virial.GUI.components.ArrayMoleculeDisplayList
  • etomica.meta.properties.ArrayProperty (implements etomica.meta.properties.Property)
  • etomica.math.numerical.ArrayReader1D
  • etomica.normalmode.ArrayReader1D
  • etomica.normalmode.ArrayReader2D
  • etomica.util.Arrays
  • org.jmol.util.ArrayUtil
  • etomica.graph.engine.impl.AssignmentImpl (implements etomica.graph.engine.Parser.Assignment)
  • etomica.association.AssociationHelperBranched (implements etomica.association.IAssociationHelper)
  • etomica.association.AssociationHelperDouble (implements etomica.association.IAssociationHelper)
  • etomica.association.AssociationHelperMolecule (implements etomica.association.IAssociationHelperMolecule)
  • etomica.association.AssociationHelperSingle (implements etomica.association.IAssociationHelper)
  • etomica.association.AssociationManager (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.util.IListener<E>)
  • etomica.association.AssociationManagerMolecule (implements etomica.util.IListener<E>, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>)
  • etomica.atom.Atom (implements etomica.atom.IAtom, java.io.Serializable)
    • etomica.atom.AtomLeafDynamic (implements etomica.atom.IAtomKinetic)
      • etomica.atom.AtomOrientedDynamic (implements etomica.atom.IAtomOrientedKinetic)
    • etomica.atom.AtomOriented (implements etomica.atom.IAtomOriented)
      • etomica.atom.AtomHydrogen
    • etomica.atom.AtomOrientedQuaternion
  • etomica.action.AtomActionRandomizeVelocity (implements etomica.action.AtomAction, java.io.Serializable)
  • etomica.action.AtomActionRotateBy (implements etomica.action.AtomAction, java.io.Serializable)
  • etomica.action.AtomActionTransformed (implements etomica.action.AtomAction)
  • etomica.models.nitrogen.AtomActionTransformed (implements etomica.action.AtomAction)
  • etomica.action.AtomActionTranslateBy (implements etomica.action.AtomAction, java.io.Serializable)
  • etomica.atom.AtomGroupVelocityAverage (implements java.io.Serializable)
  • etomica.modules.glass.AtomHardStressCollector (implements etomica.modules.glass.AtomStressSource, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.atom.iterator.AtomIteratorArrayListAdjacent (implements etomica.atom.iterator.AtomIteratorAtomDependent, java.io.Serializable)
  • etomica.atom.iterator.AtomIteratorArrayListSimple (implements etomica.atom.iterator.AtomIterator, java.io.Serializable)
    • etomica.atom.iterator.AtomIteratorArrayList (implements etomica.atom.iterator.AtomIteratorAtomDependent)
      • etomica.atom.iterator.AtomIteratorBasisAdjustableStart (implements etomica.atom.iterator.AtomIteratorBasisDependent)
    • etomica.atom.iterator.AtomIteratorBasis (implements etomica.atom.iterator.AtomIteratorBasisDependent)
      • etomica.atom.iterator.AtomIteratorBasisFilteredType
      • etomica.atom.iterator.AtomIteratorBasisFilteredType2
    • etomica.atom.iterator.AtomIteratorLeafAtoms (implements etomica.atom.iterator.AtomIteratorBoxDependent)
      • etomica.atom.iterator.AtomIteratorLeafFilteredType
  • etomica.atom.iterator.AtomIteratorNull (implements etomica.atom.iterator.AtomIterator, java.io.Serializable)
  • etomica.atom.iterator.AtomIteratorSinglet (implements etomica.atom.iterator.AtomIteratorAtomDependent, java.io.Serializable)
  • etomica.meta.properties.AtomListProperty (implements etomica.meta.properties.Property)
  • etomica.modules.glass.AtomNbrClusterer
  • etomica.nbr.list.AtomNeighborLists
  • etomica.virial.AtomPairSet (implements java.io.Serializable)
  • etomica.nbr.list.AtomPotentialList
  • etomica.atom.iterator.Atomset3IteratorIndexList (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.atom.iterator.Atomset4IteratorIndexList (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.atom.iterator.AtomsetIteratorAllLeafAtoms (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.modules.glass.AtomSignalKineticEnergy (implements etomica.data.meter.MeterStructureFactor.AtomSignalSource)
  • etomica.modules.glass.AtomSignalStress (implements etomica.data.meter.MeterStructureFactor.AtomSignalSource)
  • etomica.nbr.site.AtomSite
  • etomica.association.AtomSourceRandomDimer (implements etomica.atom.AtomSource)
  • etomica.atom.AtomSourceRandomLeaf (implements etomica.atom.AtomSource, java.io.Serializable)
    • etomica.association.AtomSourceRandomMonomer
  • etomica.association.AtomSourceRandomSmer (implements etomica.atom.AtomSource)
  • etomica.atom.AtomSourceRandomSpecies (implements etomica.atom.AtomSource)
  • etomica.modules.chainequilibrium.AtomTestChainLength (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.atom.AtomTestCollective)
  • etomica.modules.selfassembly.AtomTestChainLength (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.atom.AtomTestCollective)
  • etomica.modules.chainequilibrium.AtomTestChainLength.LengthAgent
  • etomica.modules.selfassembly.AtomTestChainLength.LengthAgent
  • etomica.modules.glass.AtomTestDeviation (implements etomica.atom.AtomTest)
  • etomica.modules.droplet.AtomTestLiquid (implements etomica.atom.AtomTestCollective)
  • etomica.modules.droplet.AtomTestLiquidAtomic (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.atom.AtomTestCollective)
  • etomica.modules.glass.AtomTestRandom (implements etomica.atom.AtomTest)
  • etomica.atom.AtomToAtomSetFixed (implements etomica.atom.AtomToAtomLeafList, etomica.atom.AtomToIndex, java.io.Serializable)
  • etomica.atom.AtomToIndexChild (implements etomica.atom.AtomToIndex, java.io.Serializable)
  • etomica.atom.AtomToParentChildList (implements etomica.atom.AtomToAtomLeafList, java.io.Serializable)
  • etomica.atom.AtomType (implements java.lang.Comparable<T>)
    • etomica.atom.AtomTypeOriented
    • etomica.atom.AtomTypeSpheroPolyhedron
  • etomica.atom.AtomTypeAgentManager<E>
  • org.jmol.util.AxisAngle4f (implements java.io.Serializable)
  • etomica.modules.vle.B2Fit.FunctionB2LJQ (implements etomica.math.function.Function)
  • etomica.modules.vle.B2Fit.FunctionMayerB2LJQ (implements etomica.math.function.Function)
  • etomica.virial.B2ForSphericallySymmetricUByTrapezoidRule
  • etomica.virial.B2Ionic
  • etomica.virial.B3ForSphericallySymmetricU
  • etomica.virial.B3LJ
  • etomica.virial.B3NonAddForSphericallySymmetricU
  • etomica.virial.B4FFTLJ
  • etomica.virial.B5FFTLJ
  • etomica.virial.B6FFTLJ
  • etomica.lattice.crystal.Basis (implements java.io.Serializable)
    • etomica.lattice.crystal.BasisBetaSnA5
    • etomica.normalmode.BasisBigCell
    • etomica.lattice.crystal.BasisCubicBcc
    • etomica.lattice.crystal.BasisCubicDiamond
    • etomica.lattice.crystal.BasisCubicFcc
    • etomica.lattice.crystal.BasisCubicFccDiamond
    • etomica.lattice.crystal.BasisHcp
    • etomica.lattice.crystal.BasisHcp4
    • etomica.lattice.crystal.BasisHcpBaseCentered
    • etomica.lattice.crystal.BasisMonatomic
    • etomica.lattice.crystal.BasisOrthorhombicHexagonal
    • etomica.modules.catalysis.ConfigurationCatalysis.BasisOrthorhombicHexagonal3D
  • etomica.graph.traversal.BCVisitor (implements etomica.graph.traversal.TraversalVisitor)
  • etomica.BenchApiAACell
  • etomica.BenchBox
  • etomica.BenchBox.VectorSystem (implements etomica.BenchBox.IVecSys)
  • etomica.BenchNbrUpdates
  • etomica.simulation.BenchSimCatalysis
  • etomica.simulation.BenchSimDCVGCMD
  • etomica.simulation.BenchSimHSMD3D
  • etomica.simulation.BenchSimLammpsLJ
  • etomica.simulation.BenchSimLJGCMC3D
  • etomica.simulation.BenchSimLJMC3D
  • etomica.simulation.BenchSimLJMD3D
  • etomica.simulation.BenchSimSurfacetensionLJMC
  • etomica.simulation.BenchSimSWChain
  • etomica.virial.simulations.BenchSimVirialH2OGCPMD
  • etomica.simulation.BenchSimVirialLJ
  • etomica.space.BenchVector
  • etomica.space.BenchVector3D
  • etomica.veos.bigdecimal.Bernoulli
  • etomica.util.numerical.BesselFunction
  • etomica.models.nitrogen.BetaPhaseLatticeParameter
  • etomica.models.nitrogen.BetaPhaseLatticeParameterLS
  • etomica.models.nitrogen.BetaPhaseLatticeParameterNA
  • etomica.association.BiasVolume (implements etomica.association.AssociationDefinition, java.io.Serializable)
    • etomica.association.BiasVolumeCube
    • etomica.association.BiasVolumeSphere
    • etomica.association.BiasVolumeSphereOriented
    • etomica.association.BiasVolumeSphereOrientedDoubleSites
  • etomica.association.BiasVolume2SiteAceticAcid (implements etomica.association.AssociationDefinitionMolecule)
  • etomica.association.BiasVolumeMolecule (implements etomica.association.AssociationDefinitionMolecule, java.io.Serializable)
    • etomica.association.BiasVolumeAceticAcid
  • etomica.graph.operations.BiComponentSubst (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.BiComponentSubst.BiComponentSubstParameters (implements etomica.graph.operations.Parameters)
  • etomica.veos.bigdecimal.BigComplex
  • etomica.veos.bigdecimal.BigDecimalMath
  • etomica.veos.bigdecimal.BigIntegerMath
  • etomica.veos.bigdecimal.BigIntegerPoly (implements java.lang.Cloneable)
  • etomica.veos.bigdecimal.BigSurd (implements java.lang.Cloneable, java.lang.Comparable<T>)
  • etomica.veos.bigdecimal.BigSurdVec (implements java.lang.Comparable<T>)
  • etomica.veos.BigValue (implements etomica.veos.IBigValue)
  • etomica.graph.engine.impl.BinaryOpImpl (implements etomica.graph.engine.Parser.BinaryOp)
    • etomica.graph.engine.impl.BinaryOpByteImpl (implements etomica.graph.engine.Parser.BinaryOpByte)
  • etomica.graph.model.BitmapFactory
  • etomica.graph.traversal.BitmapUtils
  • org.jmol.util.BitSet (implements java.lang.Cloneable)
  • org.jmol.util.BitSetUtil
  • etomica.virial.simulations.BnFlexibleContributionTraPPEUAMethanol
  • etomica.virial.BnHNCLJ
  • etomica.virial.BnHSIonic
  • etomica.virial.BnIETP2Spherical
  • etomica.virial.BnJHBVArgon_Analytic
  • etomica.virial.BnPCJSDHe
  • etomica.virial.BnPY_1QC_Helium
  • etomica.virial.BnPYCHe
  • etomica.virial.BnPYHardSphere
  • etomica.virial.BnPYLJ
  • etomica.virial.BnSCALJ
  • etomica.virial.cluster.BondConnectedSubstitution (implements etomica.graph.operations.Unary)
  • etomica.virial.cluster.BondConnectedSubstitution.BondConnectedSubstitutionParameters2Site (implements etomica.graph.operations.Parameters)
  • etomica.virial.cluster.BondConnectedSubstitution3Site (implements etomica.graph.operations.Unary)
  • etomica.virial.cluster.BondConnectedSubstitution3Site.BondConnectedSubstitutionParameters3Site (implements etomica.graph.operations.Parameters)
  • etomica.virial.cluster.BondConnectedSubstitutionNaphthalene (implements etomica.graph.operations.Unary)
  • etomica.virial.cluster.BondConnectedSubstitutionNaphthalene.BondConnectedSubstitutionParameters2SiteNa (implements etomica.graph.operations.Parameters)
  • etomica.space.Boundary
    • etomica.space.BoundaryDeformablePeriodic
      • etomica.space.BoundaryDeformableLattice
      • etomica.models.nitrogen.BoundaryDeformablePeriodicSwitch
    • etomica.space.BoundaryRectangular
      • etomica.space.BoundaryRectangularNonperiodic
        • etomica.modules.pistoncylinder.BoundaryPistonCylinder
      • etomica.space.BoundaryRectangularPeriodic
        • etomica.models.nitrogen.BoundaryRectangularPeriodicSwitch
      • etomica.space.BoundaryRectangularPore
      • etomica.space.BoundaryRectangularSlit
    • etomica.space3d.BoundaryTruncatedOctahedron
  • etomica.space.BoundaryEvent
  • etomica.space.BoundaryEventManager
  • etomica.box.Box
    • etomica.virial.BoxCluster
  • etomica.action.BoxActionAdapter (implements etomica.action.BoxAction, java.io.Serializable)
    • etomica.action.BoxDeleteMolecules
    • etomica.action.BoxImposePbc
    • etomica.action.BoxInflate (implements etomica.action.Undoable)
      • etomica.action.BoxInflateAnisotropic
      • etomica.action.BoxInflateDeformable
    • etomica.action.BoxQuench
  • etomica.box.BoxAgentManager<E> (implements etomica.simulation.SimulationListener)
  • etomica.box.BoxAgentSourceAtomManager<E> (implements etomica.box.BoxAgentManager.BoxAgentSource<E>)
  • etomica.nbr.cell.BoxAgentSourceCellManager (implements etomica.box.BoxAgentManager.BoxAgentSource<E>)
  • etomica.nbr.cell.molecule.BoxAgentSourceCellManagerMolecular (implements etomica.box.BoxAgentManager.BoxAgentSource<E>)
    • etomica.nbr.list.molecule.BoxAgentSourceCellManagerListMolecular
  • etomica.box.BoxAgentSourceMoleculeManager<E> (implements etomica.box.BoxAgentManager.BoxAgentSource<E>)
  • etomica.box.BoxEvent
    • etomica.box.BoxAtomEvent
      • etomica.box.BoxAtomIndexEvent
    • etomica.box.BoxIndexEvent
    • etomica.box.BoxMoleculeCountEvent
    • etomica.box.BoxMoleculeEvent
      • etomica.box.BoxMoleculeIndexEvent
  • etomica.box.BoxEventListenerAdapter (implements etomica.box.BoxEventListener)
    • etomica.atom.AtomLeafAgentManager<E>
  • etomica.box.BoxEventManager
  • org.jmol.util.BoxInfo
  • etomica.action.BoxRandomizeMomenta (implements etomica.action.IAction)
  • etomica.action.BoxScaleMomenta (implements etomica.action.IAction)
  • etomica.lattice.BravaisLattice (implements java.io.Serializable, etomica.lattice.SpaceLattice)
    • etomica.lattice.BravaisLatticeCrystal
      • etomica.lattice.LatticeCubicBcc (implements etomica.lattice.CubicLattice)
      • etomica.lattice.LatticeCubicDiamond (implements etomica.lattice.CubicLattice)
      • etomica.lattice.LatticeCubicFcc (implements etomica.lattice.CubicLattice)
      • etomica.lattice.LatticeHcp
      • etomica.lattice.LatticeHcp4
      • etomica.lattice.LatticeOrthorhombicHexagonal
    • etomica.lattice.LatticeCubicSimple (implements etomica.lattice.CubicLattice)
  • etomica.virial.GUI.components.BuilderCollectionPotential
  • etomica.util.BuildProperties
  • etomica.models.nitrogen.CalcAnalytical2ndDerivativeNitrogen
  • etomica.virial.CalcFFT
  • etomica.math.numerical.CalcGradientDifferentiable (implements etomica.math.function.FunctionMultiDimensionalDifferentiable)
  • etomica.models.nitrogen.CalcHalfAnalyticHalfNumeric2ndDerivativeNitrogen
  • etomica.normalmode.CalcHarmonicA
  • etomica.normalmode.CalcJacobian
  • etomica.models.nitrogen.CalcNumerical2ndDerivative
  • etomica.models.nitrogen.CalcNumerical2ndDerivativeNitrogen
  • etomica.action.CalcVibrationalModes (implements etomica.action.IAction, java.io.Serializable)
  • etomica.graph.iterators.CartesianIterator (implements etomica.graph.model.GraphIterator)
    • etomica.graph.iterators.PartitionedIterator
      • etomica.graph.iterators.IsomorphismPrefilteredPartitionedIterator
  • etomica.graph.iterators.CartesianPermutator (implements etomica.graph.model.Permutator)
  • etomica.nbr.cell.Cell (implements java.io.Serializable)
  • etomica.nbr.cell.Cell.CellFactory (implements java.io.Serializable, etomica.lattice.SiteFactory)
  • etomica.nbr.cell.molecule.CellMolecular (implements java.io.Serializable)
  • etomica.nbr.cell.molecule.CellMolecular.CellFactory (implements java.io.Serializable, etomica.lattice.SiteFactory)
  • etomica.graph.iterators.ChainedIterator (implements etomica.graph.model.GraphIterator)
  • etomica.chem.electrostatics.Charge (implements etomica.chem.electrostatics.Electrostatic, java.io.Serializable)
  • etomica.models.water.ChargeAgentSourceTIP4PWater (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
  • etomica.modules.crystalviewer.ClipPlaneEditor
  • etomica.virial.cluster.ClusterAssociation
  • etomica.virial.ClusterBonds (implements java.io.Serializable)
    • etomica.virial.cluster.Chain
    • etomica.virial.ClusterBondsNonAdditive
    • etomica.virial.cluster.Full
    • etomica.virial.cluster.Ring
  • etomica.virial.ClusterChainHS (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterChainSoft (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterConstant (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterCoupledFlipped (implements etomica.virial.ClusterAbstract)
    • etomica.virial.ClusterCoupledAtomFlipped
  • etomica.virial.ClusterCoupledFlippedMultivalue (implements etomica.virial.ClusterAbstractMultivalue)
  • etomica.virial.ClusterCoupledFlippedPartial (implements etomica.virial.ClusterAbstract)
  • etomica.virial.cluster.ClusterDiagram (implements java.io.Serializable)
  • etomica.virial.cluster.ClusterDiagramTree (implements etomica.virial.cluster.DiagramSource, java.io.Serializable)
  • etomica.virial.ClusterDifference (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterExchange (implements etomica.virial.ClusterAbstract)
  • etomica.virial.cluster.ClusterGenerator (implements java.io.Serializable)
  • etomica.virial.ClusterMultiToSingle (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterMultivalueUmbrella (implements etomica.virial.ClusterWeight)
  • etomica.virial.cluster.ClusterOperations
  • etomica.virial.ClusterSinglyConnected (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterSum (implements etomica.virial.ClusterAbstract, java.io.Serializable)
    • etomica.virial.ClusterSumAssociation
    • etomica.virial.ClusterSumEF
      • etomica.virial.ClusterSumStickyEF
    • etomica.virial.ClusterSumExternalField
    • etomica.virial.ClusterSumHS (implements etomica.virial.ClusterWheatley)
    • etomica.virial.ClusterSumIC
    • etomica.virial.ClusterSumMultibody
      • etomica.virial.ClusterSumMultibodyShell
    • etomica.virial.ClusterSumShell
  • etomica.virial.ClusterSumIC.FR2 (implements etomica.virial.MayerFunction)
  • etomica.virial.ClusterSumNonAdditiveTrimerEnergy (implements etomica.virial.ClusterAbstract, java.io.Serializable)
  • etomica.virial.ClusterSumPolarizable (implements etomica.virial.ClusterAbstract, java.io.Serializable)
  • etomica.virial.ClusterSumPolarizableWertheimProduct (implements etomica.virial.ClusterAbstract, java.io.Serializable)
  • etomica.virial.ClusterSumPolarizableWertheimProduct4Pt (implements etomica.virial.ClusterAbstract, java.io.Serializable)
  • etomica.virial.ClusterSumPolarizableWertheimProduct4PtFinal (implements etomica.virial.ClusterAbstract, java.io.Serializable)
  • etomica.virial.ClusterTree (implements etomica.virial.ClusterAbstract)
    • etomica.virial.ClusterTreeEF
  • etomica.virial.ClusterTreeBonds
  • etomica.virial.cluster.ClusterTreeNode
    • etomica.virial.cluster.ClusterCollapsedTreeNode
  • etomica.virial.ClusterWeightAbs (implements etomica.virial.ClusterWeight, java.io.Serializable)
  • etomica.virial.ClusterWeightSumWall (implements etomica.virial.ClusterWeight)
  • etomica.virial.ClusterWeightUmbrella (implements etomica.virial.ClusterWeight, java.io.Serializable)
  • etomica.virial.ClusterWheatleyExtendSW (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleyHS (implements etomica.virial.ClusterWheatley)
    • etomica.virial.ClusterICPYC
    • etomica.virial.ClusterPY
    • etomica.virial.ClusterWheatleyHS.AllSigs
  • etomica.virial.ClusterWheatleyMultibodyDerivatives.ClusterRetrievePrimes (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleyMultibodyDerivativesBD.ClusterRetrievePrimes (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleyPartitionScreening (implements etomica.virial.ClusterWheatley)
  • etomica.virial.ClusterWheatleyPartitionScreening.FrequencyCounter
  • etomica.virial.ClusterWheatleyPT (implements etomica.virial.ClusterAbstractMultivalue)
  • etomica.virial.ClusterWheatleyPT.ClusterRetrieveOrders (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleyPT.ClusterRetrievePrimesBD (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleySoft (implements etomica.virial.ClusterAbstract)
    • etomica.virial.ClusterWheatleyMultibody
    • etomica.virial.ClusterWheatleySoftMix
      • etomica.virial.ClusterWheatleyMultibodyMix
  • etomica.virial.ClusterWheatleySoftBD (implements etomica.virial.ClusterAbstract)
    • etomica.virial.ClusterWheatleyMultibodyBD
    • etomica.virial.ClusterWheatleySoftMixBD
  • etomica.virial.ClusterWheatleySoftDerivatives (implements etomica.virial.ClusterAbstract, etomica.virial.ClusterAbstractMultivalue)
    • etomica.virial.ClusterWheatleyMultibodyDerivatives (implements etomica.virial.ClusterAbstractMultivalue)
    • etomica.virial.ClusterWheatleySoftDerivativesMix
  • etomica.virial.ClusterWheatleySoftDerivatives.ClusterRetrievePrimes (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleySoftDerivatives.ClusterRetrievePrimesBD (implements etomica.virial.ClusterAbstract)
  • etomica.virial.ClusterWheatleySoftDerivativesBD (implements etomica.virial.ClusterAbstract, etomica.virial.ClusterAbstractMultivalue)
    • etomica.virial.ClusterWheatleyMultibodyDerivativesBD (implements etomica.virial.ClusterAbstractMultivalue)
    • etomica.virial.ClusterWheatleySoftDerivativesMixBD
  • etomica.virial.ClusterWheatleySoftDerivativesBD.ClusterRetrievePrimes (implements etomica.virial.ClusterAbstract)
  • etomica.graph.model.impl.CoefficientImpl (implements etomica.graph.model.Coefficient)
  • org.jmol.util.Colix
  • etomica.virial.GUI.components.CollectionPotentialAtomicLike (implements etomica.virial.GUI.components.ICollectionPotential)
  • etomica.virial.GUI.components.CollectionPotentialAtomicUnlike (implements etomica.virial.GUI.components.ICollectionPotential)
  • etomica.virial.GUI.components.CollectionPotentialMolecularLike (implements etomica.virial.GUI.components.ICollectionPotential)
  • etomica.virial.GUI.components.CollectionPotentialMolecularUnlike (implements etomica.virial.GUI.components.ICollectionPotential)
  • etomica.modules.colloid.ColloidGraphic.GraftAction (implements etomica.action.IAction)
  • etomica.modules.colloid.ColloidGraphic.WallRangeModifier (implements etomica.modifier.Modifier)
  • etomica.modules.colloid.ColloidSim.CriterionNone (implements etomica.nbr.NeighborCriterion)
  • etomica.graphics.ColorScheme
    • etomica.graphics.ColorScheme.Simple
    • etomica.graphics.ColorSchemeByType
      • etomica.modules.catalysis.ColorSchemeRadical
      • etomica.modules.chainequilibrium.ColorSchemeRadical (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.graphics.ColorSchemeCollective)
    • etomica.graphics.ColorSchemeCell
    • etomica.modules.glass.ColorSchemeCluster (implements etomica.graphics.ColorSchemeCollective)
    • etomica.modules.nucleation.ColorSchemeCluster (implements etomica.graphics.ColorSchemeCollective)
    • etomica.graphics.ColorSchemeCollectiveAgent (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.graphics.ColorSchemeCollective)
      • etomica.graphics.ColorSchemeCoordination
      • etomica.graphics.ColorSchemeNeighbor
      • etomica.graphics.ColorSchemeNeighborCell
      • etomica.graphics.ColorSchemeOverlap
      • etomica.normalmode.nptdemo.ColorSchemeScaledOverlap
    • etomica.graphics.ColorSchemeColliders
    • etomica.modules.glass.ColorSchemeDeviation
    • etomica.modules.glass.ColorSchemeDirection
    • etomica.modules.droplet.ColorSchemeDropletSurface (implements etomica.graphics.ColorSchemeCollective)
    • etomica.modules.droplet.ColorSchemeLiquidVapor (implements etomica.graphics.ColorSchemeCollective)
    • etomica.graphics.ColorSchemeNull
    • etomica.cavity.ColorSchemePaired
    • etomica.modules.crystalviewer.ColorSchemePlane
    • etomica.graphics.ColorSchemeRandom (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
    • etomica.graphics.ColorSchemeRandomByMolecule (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>)
    • etomica.association.ColorSchemeSmer (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
    • etomica.association.ColorSchemeSmerByLength
    • etomica.modules.chainequilibrium.ColorSchemeStepWise
    • etomica.graphics.ColorSchemeTemperature
    • etomica.freeenergy.npath.ConfigFromFileLAMMPS.ColorSchemeDeviation (implements etomica.graphics.ColorSchemeCollective)
    • etomica.normalmode.HSNPT.ColorSchemeDisplacement
    • etomica.modules.materialfracture.StrainColorScheme
  • etomica.modules.chainequilibrium.ColorSchemeRadical.LengthAgent
  • etomica.association.ColorSchemeSmer.ColorAgent
  • org.jmol.util.ColorUtil
  • etomica.math.discrete.CombinationIterator (implements etomica.lattice.IndexIterator, java.io.Serializable)
  • etomica.graph.operations.CombineABSite (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.CombineABSite.CombineABSiteParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.engine.impl.CommandImpl (implements etomica.graph.engine.Parser.Command)
    • etomica.graph.engine.impl.CommandPropertyValueImpl (implements etomica.graph.engine.Parser.CommandPropertyValue)
    • etomica.graph.engine.impl.CommandValueImpl (implements etomica.graph.engine.Parser.CommandValue)
    • etomica.graph.engine.impl.CommandVariableImpl (implements etomica.graph.engine.Parser.CommandVariable)
    • etomica.graph.engine.impl.CommandVariableValueImpl (implements etomica.graph.engine.Parser.CommandVariableValue)
  • etomica.meta.Common
  • etomica.graph.model.comparators.ComparatorBiConnected (implements java.util.Comparator<T>)
  • etomica.graph.model.comparators.ComparatorChain (implements java.util.Comparator<T>)
  • etomica.graph.model.comparators.ComparatorNodeColors (implements java.util.Comparator<T>)
  • etomica.graph.model.comparators.ComparatorNumEdges (implements java.util.Comparator<T>)
  • etomica.graph.model.comparators.ComparatorNumFieldNodes (implements java.util.Comparator<T>)
  • etomica.graph.model.comparators.ComparatorNumNodes (implements java.util.Comparator<T>)
  • etomica.graph.model.comparators.ComparatorNumRootNodes (implements java.util.Comparator<T>)
  • etomica.math.Complex
  • java.awt.Component (implements java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable)
    • java.awt.Container
      • javax.swing.JComponent (implements java.io.Serializable)
        • javax.swing.JPanel (implements javax.accessibility.Accessible)
          • etomica.graphics.DisplayCanvas
            • etomica.graphics.DisplayBoxCanvas1D
            • etomica.graphics.DisplayBoxCanvas2D
              • etomica.modules.glass.DisplayBoxCanvas2DGlass (implements etomica.modules.glass.DisplayBoxCanvasGlass)
              • etomica.normalmode.nptdemo.DisplayBoxCanvas2DNpTScaling
              • etomica.graphics.DisplayBoxSpin2D
            • etomica.graphics.DisplayBoxCanvasG3DSys (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
              • etomica.modules.glass.DisplayBoxCanvas3DGlass (implements etomica.modules.glass.DisplayBoxCanvasGlass)
            • etomica.graphics.DisplayPolytopeCanvas2D
            • etomica.graphics.DisplayPolytopeCanvasG3DSys
          • etomica.modules.ModuleLauncher
          • etomica.virial.GUI.containers.PanelMainFrame
          • ptolemy.plot.PlotBox (implements java.awt.print.Printable)
            • ptolemy.plot.Plot
              • etomica.graphics.EtomicaPlot
          • etomica.modules.reactionequilibrium.ReactionEquilibriumGraphic.MassEditor
          • etomica.modules.reactionequilibrium.ReactionEquilibriumGraphic.MySpeciesEditor
          • etomica.graphics.SimulationPanel
            • etomica.modules.vle.B2Fit
            • etomica.modules.crystalviewer.CrystalViewer
          • etomica.normalmode.SoftSphereSolidEOSCalculator (implements java.beans.PropertyChangeListener)
          • etomica.virial.GUI.models.ViewSpeciesSelection
          • etomica.virial.GUI.views.ViewSpeciesSelection
        • javax.swing.JSlider (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • etomica.graphics.DecimalSlider
        • javax.swing.text.JTextComponent (implements javax.accessibility.Accessible, javax.swing.Scrollable)
          • javax.swing.JTextArea
            • etomica.graph.engine.ConsoleUI (implements etomica.graph.engine.Console)
          • javax.swing.JTextField (implements javax.swing.SwingConstants)
            • etomica.graphics.PropertyText (implements java.awt.event.FocusListener, java.awt.event.KeyListener, java.beans.PropertyChangeListener)
      • java.awt.Panel (implements javax.accessibility.Accessible)
        • java.applet.Applet
          • javax.swing.JApplet (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer)
            • etomica.modules.adsorption.AdsorptionGraphic.Applet
            • etomica.math.numerical.AkimaSplineSmootherApp.Applet
            • etomica.math.numerical.AkimaSplineSmootherDyApp.Applet
            • etomica.modules.vle.B2Fit.Applet
            • etomica.modules.catalysis.CatalysisGraphic.Applet
            • etomica.modules.chainequilibrium.ChainEquilibriumGraphic.Applet
            • etomica.modules.colloid.ColloidGraphic.Applet
            • etomica.modules.crystalviewer.CrystalViewer.Applet
            • etomica.modules.dcvgcmd.DCVGCMDGraphic.Applet
            • etomica.rotation.DipoleBox.Applet
            • etomica.rotation.DipoleBoxMatrix.Applet
            • etomica.graphics.DisplayPolytope.Applet
            • etomica.modules.droplet.DropletAtomicGraphic.Applet
            • etomica.modules.droplet.DropletGraphic.Applet
            • etomica.modules.chainequilibrium.FreeRadicalPolymerizationGraphic.Applet
            • etomica.normalmode.HTTPSoftSphereApplet.Applet
            • etomica.modules.insertion.InsertionGraphic.Applet
            • etomica.modules.interfacial.InterfacialSWGraphic.Applet
            • etomica.modules.ensembles.LJMCGraphic.Applet
            • etomica.simulation.prototypes.LJMD3D.Applet
            • etomica.simulation.prototypes.LJMD3DNbr.Applet
            • etomica.modules.ljmd.LjmdGraphic.Applet
            • etomica.modules.materialfracture.MaterialFractureGraphic.Applet
            • etomica.modules.mu.MuGraphic.Applet
            • etomica.modules.multiharmonic.MultiharmonicGraphic.Applet
            • etomica.modules.multiharmonic.mbar.MultiharmonicGraphicMC.Applet
            • etomica.modules.multiharmonic.MultiharmonicGraphicMC.Applet
            • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.Applet
            • etomica.modules.multiharmonic.umbrella.MultiharmonicGraphicMC.Applet
            • etomica.modules.clustergenerator.MyApplet
            • etomica.normalmode.NormalModeAnalysisDisplay1D.Applet
            • etomica.normalmode.NormalModeAnalysisDisplay1DGraphic.Applet
            • etomica.normalmode.NormalModeAnalysisDisplay2DGraphic.Applet
            • etomica.normalmode.NormalModeAnalysisDisplay3D.Applet
            • etomica.normalmode.NormalModeAnalysisDisplay3DGraphic.Applet
            • etomica.modules.pistoncylinder.PistonCylinderGraphic.Applet
            • etomica.modules.reactionequilibrium.ReactionEquilibriumGraphic.Applet
            • etomica.modules.rosmosis.ReverseOsmosisGraphic.Applet
            • etomica.modules.rosmosis.ReverseOsmosisWaterGraphic.Applet
            • etomica.modules.rheology.RheologyGraphic.Applet
            • etomica.modules.sam.SamGraphic.Applet
            • etomica.normalmode.SimLJVacancy.Applet
            • etomica.rotation.SingleDipole.Applet
            • etomica.rotation.SingleDumbellRattle.Applet
            • etomica.rotation.SingleDumbellShake.Applet
            • etomica.rotation.SingleWater.Applet
            • etomica.rotation.SingleWaterMatrix.Applet
            • etomica.rotation.SingleWaterRattle.Applet
            • etomica.rotation.SingleWaterShake.Applet
            • etomica.modules.swmd.SwmdGraphic.Applet
            • etomica.modules.vle.VLE.Applet
            • etomica.rotation.WaterBox.Applet
            • etomica.rotation.WaterDroplet.Applet
            • etomica.rotation.WaterDropletMatrix.Applet
            • etomica.rotation.WaterDropletRattle.Applet
            • etomica.rotation.WaterDropletShake.Applet
            • etomica.rotation.WaterTrimer.Applet
            • etomica.rotation.WaterTrimerRattle.Applet
            • etomica.rotation.WaterTrimerShake.Applet
      • java.awt.Window (implements javax.accessibility.Accessible)
        • java.awt.Dialog
          • javax.swing.JDialog (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • etomica.graphics.AboutBoxWindow
        • java.awt.Frame (implements java.awt.MenuContainer)
          • javax.swing.JFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • etomica.virial.GUI.containers.AppFrameMixtureBuilder
            • etomica.graph.viewer.ClusterViewer (implements etomica.graph.engine.Viewer)
            • etomica.graph.engine.Launcher.ConsoleWindow (implements etomica.graph.engine.ConsoleContainer)
            • etomica.virial.GUI.views.ViewAlertMsgBox
            • etomica.virial.GUI.views.ViewAlertMsgBoxSpeciesRemoval
            • etomica.virial.GUI.views.ViewAlkaneLengthSelection
            • etomica.virial.GUI.views.ViewSimEnvironmentSelection
    • etomica.util.Grabber.ImagePanel
    • etomica.modules.clustergenerator.Plot
      • etomica.modules.clustergenerator.ClusterPanel
  • etomica.meta.ComponentIndex<T>
    • etomica.meta.DataSourceIndex
  • etomica.graph.operations.ComponentSubst (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.ComponentSubst.ComponentSubstParameters (implements etomica.graph.operations.Parameters)
  • etomica.units.CompoundUnit (implements etomica.units.Unit)
    • etomica.units.UnitRatio
  • etomica.virial.cluster.CondenseExchange (implements etomica.graph.operations.Unary)
  • etomica.virial.cluster.CondenseExchange.CondenseExchangeParameters (implements etomica.graph.operations.Parameters)
  • etomica.freeenergy.npath.ConfigFromFileLAMMPS
  • etomica.freeenergy.npath.ConfigFromFileLAMMPS.AtomTestDeviation (implements etomica.atom.AtomTest)
  • etomica.freeenergy.npath.ConfigFromFileLAMMPS.ModifierConfiguration (implements etomica.modifier.Modifier)
  • io.dropwizard.Configuration
    • etomica.server.EtomicaServerConfig
  • etomica.spin.ising.ConfigurationAligned (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.modules.catalysis.ConfigurationCatalysis (implements etomica.config.Configuration)
  • etomica.virial.ConfigurationCluster (implements etomica.config.Configuration, java.io.Serializable)
    • etomica.virial.ConfigurationClusterAceticAcid
    • etomica.virial.ConfigurationClusterChain
    • etomica.virial.ConfigurationClusterChainFourSites
    • etomica.virial.ConfigurationClusterMove
    • etomica.virial.ConfigurationClusterWertheimGCPM
    • etomica.virial.ConfigurationClusterWertheimGCPM4Pt
    • etomica.virial.ConfigurationClusterWertheimGCPMDirectSampling
  • etomica.modules.colloid.ConfigurationColloid (implements etomica.config.Configuration)
  • etomica.modules.droplet.ConfigurationDroplet (implements etomica.config.Configuration)
  • etomica.config.ConfigurationFile (implements etomica.config.Configuration, java.io.Serializable)
    • etomica.models.water.ConfigurationFileTIP4P
    • etomica.config.ConfigurationOrientedFile
  • etomica.config.ConfigurationFileBinary (implements etomica.config.Configuration)
  • etomica.zeolite.ConfigurationFileXYZ (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.interfacial.ConfigurationLammps (implements etomica.config.Configuration)
  • etomica.config.ConfigurationLattice (implements etomica.config.Configuration, java.io.Serializable)
    • etomica.modules.chainequilibrium.ConfigurationLatticeFreeRadical
    • etomica.config.ConfigurationLatticeRandom
    • etomica.modules.dcvgcmd.ConfigurationLatticeTube
    • etomica.config.ConfigurationLatticeWithPlane
    • etomica.config.ConfigurationZincblende
  • etomica.config.ConfigurationLattice.MyLattice (implements etomica.lattice.SpaceLattice)
  • etomica.config.ConfigurationLatticeSimple (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.modules.rosmosis.ConfigurationMembrane (implements etomica.config.Configuration)
  • etomica.modules.rosmosis.ConfigurationMembraneWater (implements etomica.config.Configuration)
  • etomica.modules.rheology.ConfigurationPolymer (implements etomica.config.Configuration)
  • etomica.config.ConfigurationReplicate
  • etomica.config.ConfigurationResourceFile (implements etomica.config.Configuration)
  • etomica.config.Configurations
  • etomica.modules.sam.ConfigurationSAM (implements etomica.config.Configuration)
  • etomica.modules.glass.ConfigurationStorage (implements etomica.integrator.IntegratorListener)
  • etomica.modules.glass.ConfigurationStoragePumper (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener)
  • etomica.server.representations.ConfigurationUpdate
  • etomica.rotation.ConfigurationWater108 (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.rotation.ConfigurationWater108TIP4P (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.rotation.ConfigurationWater256 (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.rotation.ConfigurationWater3 (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.rotation.ConfigurationWater3_3P (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.server.resources.ConfigurationWebsocket
  • etomica.server.resources.ConfigurationWebsocket.ConfigurationUpdateEncoder (implements javax.websocket.Encoder.TextStream<T>)
  • etomica.virial.Conformation7SiteRigidSF6 (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.models.OPLS.ConformationAceticAcid (implements etomica.config.IConformation)
  • etomica.AlkaneEH.ConformationAlkaneEH (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.virial.ConformationAnthracene3site (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.virial.ConformationAnthraceneTraPPE (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.config.ConformationChain (implements etomica.config.IConformation, java.io.Serializable)
    • etomica.config.ConformationChain2D
    • etomica.config.ConformationChain3D
    • etomica.config.ConformationChainZigZag
    • etomica.config.ConformationChainZigZag2
  • etomica.config.ConformationChainLinear (implements etomica.config.IConformation)
  • etomica.models.co2.ConformationCO2 (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.models.rowley.ConformationEthanol (implements etomica.config.IConformation)
  • etomica.config.ConformationGeneric (implements etomica.config.IConformation)
  • etomica.normalmode.ConformationHSDimer (implements etomica.config.IConformationOriented, java.io.Serializable)
  • etomica.config.ConformationLinear (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.AlkaneEH.ConformationMethane (implements etomica.config.IConformation)
  • etomica.models.rowley.ConformationMethanol (implements etomica.config.IConformation)
  • etomica.virial.ConformationNaphthaleneTraPPE (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.models.nitrogen.ConformationNitrogen (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.models.nitrogen.ConformationNitrogenShellModel (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.virial.ConformationPh3site (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.virial.ConformationPhenanthreneTraPPE (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.starpolymer.ConformationStarPolymerGraft (implements etomica.config.IConformation)
  • etomica.modules.dcvgcmd.ConformationTube (implements etomica.config.IConformation)
  • etomica.config.ConformationWater (implements etomica.config.IConformation, java.io.Serializable)
  • etomica.models.water.ConformationWater3P (implements etomica.config.IConformation)
    • etomica.models.water.OrientationCalcWater3P (implements etomica.molecule.OrientationCalc, etomica.molecule.OrientationCalcQuaternion, java.io.Serializable)
  • etomica.models.water.ConformationWaterGCPM (implements etomica.config.IConformation, java.io.Serializable)
    • etomica.models.water.ConformationWaterGCPMCOM
  • etomica.models.water.ConformationWaterTIP4P (implements etomica.config.IConformation, java.io.Serializable)
    • etomica.models.water.OrientationCalcWater4P (implements etomica.molecule.OrientationCalc, etomica.molecule.OrientationCalcQuaternion, java.io.Serializable)
  • etomica.util.Constants
  • etomica.server.core.construction.Construction
  • etomica.server.representations.ConstructionInfo
  • etomica.server.representations.ConstructionParams
  • etomica.graph.engine.impl.ConstructorImpl (implements etomica.graph.engine.Parser.Constructor)
    • etomica.graph.engine.impl.ConstructorColoredImpl (implements etomica.graph.engine.Parser.ConstructorColored)
    • etomica.graph.engine.impl.ConstructorMonoImpl (implements etomica.graph.engine.Parser.ConstructorMono)
  • etomica.action.controller.Controller
  • etomica.action.controller.Controller.ActivityHandle<A>
  • etomica.action.controller.Controller.ControllerHandle
  • etomica.virial.GUI.controllers.ControllerAlertMsgBox
  • etomica.virial.GUI.controllers.ControllerAlertMsgBox.CloseWindowButtonListener (implements java.awt.event.ActionListener)
  • etomica.virial.GUI.controllers.ControllerAlertMsgBoxSpeciesRemoval
  • etomica.virial.GUI.controllers.ControllerAlertMsgBoxSpeciesRemoval.NoDoNotRemoveSpeciesButtonListener (implements java.awt.event.ActionListener)
  • etomica.virial.GUI.controllers.ControllerAlertMsgBoxSpeciesRemoval.YesRemoveSpeciesButtonListener (implements java.awt.event.ActionListener)
  • etomica.virial.GUI.controllers.ControllerAlkaneLengthSelection
  • etomica.virial.GUI.controllers.ControllerSimEnvironmentSelection
  • etomica.virial.GUI.controllers.ControllerSpeciesSelection
  • etomica.server.resources.ControlResource
  • etomica.graph.operations.Conv (implements etomica.graph.operations.Binary)
  • etomica.graph.operations.ConvParameters (implements etomica.graph.operations.Parameters)
  • etomica.math.geometry.coordinate.CoordinateConverter
  • etomica.normalmode.CoordinateDefinition
    • etomica.normalmode.CoordinateDefinitionLeaf (implements java.io.Serializable)
      • etomica.normalmode.CoordinateDefinitionLeafSuperBox
    • etomica.normalmode.CoordinateDefinitionMolecule (implements java.io.Serializable)
      • etomica.normalmode.CoordinateDefinitionHSDimer (implements java.io.Serializable)
      • etomica.models.nitrogen.CoordinateDefinitionNitrogen (implements java.io.Serializable)
      • etomica.models.nitrogen.CoordinateDefinitionNitrogenSuperBox (implements java.io.Serializable)
    • etomica.normalmode.CoordinateDefinitionMoleculeVolumeFluctuation (implements java.io.Serializable)
  • etomica.normalmode.CoordinateDefinition.BasisCell (implements java.io.Serializable)
  • etomica.normalmode.CoordinateDefinition.SiteSource (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
  • etomica.normalmode.CoordinateDefinitionMolecule.MoleculeSiteSource (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
  • etomica.normalmode.CoordinateDefinitionMoleculeVolumeFluctuation.MoleculeSiteSource (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
  • etomica.models.nitrogen.CoordinateDefinitionNitrogen.OrientationAgentSource (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
  • etomica.models.nitrogen.CoordinateDefinitionNitrogenSuperBox.OrientationAgentSource (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
  • etomica.virial.CoordinatePairLeafSet (implements etomica.virial.CoordinatePairSet)
  • etomica.virial.CoordinatePairMoleculeSet (implements etomica.virial.CoordinatePairSet)
  • etomica.modules.glass.CorrelationSelf2 (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener)
  • etomica.modules.glass.CorrelationSelf2.MeterCorrelationSelf2 (implements etomica.data.IDataSource)
  • etomica.nbr.CriterionAdapter (implements etomica.nbr.NeighborCriterion, java.io.Serializable)
    • etomica.nbr.CriterionBondedSimple
    • etomica.nbr.CriterionInterMolecular
  • etomica.nbr.molecule.CriterionAdapterMolecular (implements etomica.nbr.molecule.NeighborCriterionMolecular, java.io.Serializable)
    • etomica.nbr.molecule.CriterionSpecies
    • etomica.nbr.molecule.CriterionSpeciesPair
  • etomica.nbr.CriterionAll (implements etomica.nbr.NeighborCriterion)
  • etomica.nbr.molecule.CriterionAllMolecular (implements etomica.nbr.molecule.NeighborCriterionMolecular, java.io.Serializable)
  • etomica.nbr.CriterionNone (implements etomica.nbr.NeighborCriterion)
  • etomica.nbr.CriterionPositionWall (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.nbr.NeighborCriterion)
  • etomica.nbr.CriterionPositionWall.DoubleWrapper
  • etomica.nbr.CriterionSimple (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.nbr.NeighborCriterion)
  • etomica.nbr.molecule.CriterionSimpleMolecular (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, etomica.nbr.molecule.NeighborCriterionMolecular)
  • etomica.modules.sam.CriterionTether3 (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, etomica.nbr.NeighborCriterion)
  • etomica.graph.traversal.CVisitor (implements etomica.graph.traversal.TraversalVisitor)
  • etomica.modules.statistics.DataAccPusher (implements etomica.data.IDataSink)
    • etomica.modules.statistics.DataAccCorrectedPusher
    • etomica.modules.statistics.DataAccDiffCorrectedPusher
    • etomica.modules.statistics.DataAccDifficultyPusher
    • etomica.modules.statistics.DataAccSamplesPusher
  • etomica.server.representations.DataAndInfo
  • etomica.data.DataArrayWriter (implements etomica.data.DataLogger.DataWriter)
  • etomica.modules.glass.DataClusterer (implements etomica.data.IDataSink)
  • etomica.modules.glass.DataClusterer.PressureSink (implements etomica.data.IDataSink)
  • etomica.modules.glass.DataClusterReader
  • etomica.modules.glass.DataClusterWriter (implements etomica.data.IDataSink)
  • etomica.modules.glass.DataClusterWriter.PressureSink (implements etomica.data.IDataSink)
  • etomica.modules.statistics.DataCollector (implements etomica.data.IDataSource)
  • etomica.zeolite.DataCutter
  • etomica.data.DataDistributer (implements etomica.data.IDataSink)
  • etomica.data.types.DataDouble (implements etomica.data.IData, java.io.Serializable)
  • etomica.data.types.DataDoubleArray (implements etomica.data.IData, java.io.Serializable)
    • etomica.data.types.DataFunction
  • etomica.data.types.DataDoubleBDArray (implements etomica.data.IData, java.io.Serializable)
  • etomica.data.DataDump (implements etomica.data.IDataSink, etomica.data.IDataSource)
  • etomica.data.DataFork (implements etomica.data.DataPipeForked)
  • etomica.data.types.DataGroup (implements etomica.data.IData, java.io.Serializable)
    • etomica.data.types.DataTable (implements etomica.data.IData, java.io.Serializable)
    • etomica.lattice.LatticeSumCrystal.DataGroupLSC
    • etomica.models.nitrogen.LatticeSumCrystalMolecular.DataGroupLSC
  • etomica.data.DataGroupSplitter (implements etomica.data.IDataSink)
  • etomica.data.DataInfo (implements etomica.data.IDataInfo, java.io.Serializable)
    • etomica.data.types.DataDouble.DataInfoDouble
    • etomica.data.types.DataDoubleArray.DataInfoDoubleArray
      • etomica.data.types.DataFunction.DataInfoFunction
    • etomica.data.types.DataDoubleBDArray.DataInfoDoubleBDArray
    • etomica.data.types.DataGroup.DataInfoGroup
      • etomica.data.types.DataTable.DataInfoTable
    • etomica.data.types.DataTensor.DataInfoTensor
    • etomica.data.types.DataVector.DataInfoVector
  • etomica.data.DataInfoFactory (implements etomica.data.IDataInfoFactory, java.io.Serializable)
    • etomica.data.types.DataDouble.DataInfoDoubleFactory
    • etomica.data.types.DataDoubleArray.DataInfoDoubleArrayFactory
      • etomica.data.types.DataFunction.DataInfoFunctionFactory
    • etomica.data.types.DataDoubleBDArray.DataInfoDoubleBDArrayFactory
    • etomica.data.types.DataGroup.DataInfoGroupFactory
      • etomica.data.types.DataTable.DataInfoTableFactory
    • etomica.data.types.DataTensor.DataInfoTensorFactory
    • etomica.data.types.DataVector.DataInfoVectorFactory
  • etomica.overlap.DataOverlap (implements etomica.overlap.IntegratorOverlap.ReferenceFracSource)
    • etomica.modules.multiharmonic.overlap.DataOverlapCaching
  • etomica.overlap.DataOverlap.DataSourceOverlapAvgCollapsing (implements etomica.overlap.DataOverlap.DataSourceOverlapLogAvg)
    • etomica.overlap.DataOverlap.DataSourceOverlapAvgCollapsingSplit
  • etomica.overlap.DataOverlap.DataSourceOverlapAvgSimple (implements etomica.overlap.DataOverlap.DataSourceOverlapAvg)
  • etomica.data.DataProcessor (implements etomica.data.DataPipe)
    • etomica.normalmode.BoltzmannProcessor
    • etomica.data.types.CastGroupOfTablesToDataTable
    • etomica.data.types.CastGroupToDoubleArray
    • etomica.data.types.CastToDouble
    • etomica.data.types.CastToDoubleArray
    • etomica.data.types.CastToGroup
    • etomica.data.types.CastToTable (implements java.io.Serializable)
    • etomica.data.DataGroupFilter
    • etomica.data.DataLogger
    • etomica.modules.multiharmonic.DataProcessorBias
    • etomica.normalmode.DataProcessorBoltzmannFactor
    • etomica.modules.multiharmonic.DataProcessorBounds
    • etomica.cavity.DataProcessorCavity (implements etomica.integrator.IntegratorHard.CollisionListener)
    • etomica.data.DataProcessorChemicalPotential
    • etomica.eam.DataProcessorCvMD
    • etomica.modules.multiharmonic.DataProcessorDyDLnx (implements etomica.data.DataSourceIndependent)
    • etomica.cavity.DataProcessorErrorBar
    • etomica.data.DataProcessorForked (implements etomica.data.DataPipeForked)
      • etomica.data.DataAccumulator (implements etomica.data.IDataSource)
        • etomica.modules.glass.AccumulatorAutocorrelationPTensor (implements etomica.data.DataSourceIndependent)
        • etomica.modules.glass.AccumulatorAutocorrelationShearStress (implements etomica.data.DataSourceIndependent)
        • etomica.data.AccumulatorAverage
          • etomica.data.AccumulatorAverageCollapsing
          • etomica.data.AccumulatorAverageFixed
            • etomica.data.AccumulatorAverageCovariance
              • etomica.data.AccumulatorRatioAverageCovariance
                • etomica.virial.overlap.AccumulatorVirialOverlapSingleAverage
              • etomica.data.AccumulatorRatioAverageCovarianceFull
            • etomica.modules.statistics.AccumulatorMimicMu
          • etomica.data.AccumulatorAverageFixedOutputFile
        • etomica.data.AccumulatorAverageBlockless
        • etomica.data.AccumulatorAverageBlocklessSlim
        • etomica.data.AccumulatorAverageBootstrap (implements etomica.data.DataSourceIndependent)
        • etomica.data.AccumulatorAverageCollapsingLog (implements etomica.data.DataSourceIndependent)
          • etomica.data.AccumulatorAverageCollapsingLogAB
        • etomica.data.AccumulatorCounter
        • etomica.data.AccumulatorHistogram
        • etomica.data.AccumulatorHistory
      • etomica.modules.statistics.DataProcessorBounds
      • etomica.cavity.DataProcessorGContactP
      • etomica.cavity.DataProcessorPContactG
      • etomica.cavity.DataProcessorWidomContact
    • etomica.data.DataProcessorFunction
    • etomica.data.DataProcessorInterfacialTension
    • etomica.modules.interfacial.DataProcessorInterfacialTensionProfile
    • etomica.modules.statistics.DataProcessorMu
    • etomica.liquidLJ.DataProcessorReweight
    • etomica.liquidLJ.DataProcessorReweightRatio
    • etomica.normalmode.DataProcessorSum
    • etomica.surfacetension.DataProcessorSurfaceTension
    • etomica.modules.multiharmonic.DataProcessorVar
    • etomica.virial.overlap.DataProcessorVirialOverlap (implements etomica.overlap.AlphaSource)
    • etomica.metastable.DataProcessorXY (implements etomica.data.DataSourceIndependent)
    • etomica.data.DataPump (implements etomica.action.IAction)
      • etomica.data.DataPumpListener (implements etomica.integrator.IntegratorListener)
        • etomica.data.DataPumpListenerSmart
      • etomica.data.DataPumpListenerPow (implements etomica.integrator.IntegratorListener)
      • etomica.data.DataPumpListenerPowStrict (implements etomica.integrator.IntegratorListener)
    • etomica.modules.droplet.DropletGraphic.DataProcessorTensorSplitter
    • etomica.modules.interfacial.FitTanh
    • etomica.surfacetension.FitTanh
    • etomica.modules.glass.GlassGraphic.DataProcessorTensorTrace
    • etomica.modules.interfacial.InterfacialSWGraphic.DataProcessorTensorSplitter
    • etomica.liquidLJ.LjMd3D.DataProcessorCorrection
    • etomica.liquidLJ.LjMd3D.DataProcessorReweight
    • etomica.modules.ljmd.LjmdGraphic.DataProcessorTensorTrace
    • etomica.modules.chainequilibrium.MolecularWeightAvg
    • etomica.modules.chainequilibrium.MolecularWeightAvg2
    • etomica.modules.mu.MuGraphic.DataProcessorMu
    • etomica.modules.mu.MuGraphic.DataSinkExcludeOverlap
    • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataProcessAHT
    • etomica.modules.nucleation.NucleationGraphic.DataSinkExcludeOverlap
    • etomica.modules.rosmosis.ReverseOsmosisGraphic.DataSinkExcludeOverlap
    • etomica.modules.rosmosis.ReverseOsmosisWaterGraphic.DataSinkExcludeOverlap
    • etomica.modules.sam.SamGraphic.DataPipeStressStrain
    • etomica.modules.statistics.StatisticsMCGraphic.DataProcessorUndo (implements etomica.data.DataSourceIndependent)
    • etomica.surfacetension.SurfaceTensionMapped
    • etomica.modules.swmd.SwmdGraphic.DataSinkExcludeOverlap
    • etomica.virial.simulations.VirialPolyhedra.DataProcessorR2
    • etomica.virial.simulations.VirialPolyhedra2.DataProcessorR2
  • etomica.cavity.DataProcessorWidomContact.GContactSink (implements etomica.data.IDataSink)
  • etomica.data.DataSet
    • etomica.data.DataSinkTable
      • etomica.data.DataTableAverages
  • etomica.data.DataSet.DataSetSink (implements etomica.data.IDataSink)
  • etomica.modules.glass.DataSinkBlockAveragerSFac (implements etomica.data.IDataSink)
  • etomica.data.DataSinkConsole (implements etomica.data.IDataSink, java.io.Serializable)
  • etomica.modules.glass.DataSourceAlpha2 (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceBlockAvgCor (implements etomica.data.DataSourceIndependent, etomica.data.IDataSink, etomica.data.IDataSource)
    • etomica.modules.glass.DataSourceCorMSD (implements etomica.modules.glass.DataSourceMSD.MSDSink)
  • etomica.modules.glass.DataSourceCorrelation (implements etomica.data.DataSourceIndependent)
  • etomica.modules.glass.DataSourceCorrelation.Meter (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceCorrelation.Receiver (implements etomica.modules.glass.DataSinkBlockAveragerSFac.Sink)
  • etomica.modules.adsorption.DataSourceDensityFunction (implements etomica.data.IDataSource)
  • etomica.freeenergy.npath.DataSourceEnergies (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceF (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.normalmode.DataSourceFE (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.normalmode.DataSourceFEHistogram (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceFOld (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceFs (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.data.DataSourceFunction (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource, java.io.Serializable)
  • etomica.data.DataSourceGroup (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.modules.glass.DataSourceHisogram (implements etomica.data.DataSourceIndependent, etomica.data.IDataSink, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceHistogramMSD (implements etomica.data.DataSourceIndependent, etomica.modules.glass.DataSourceMSD.MSDSink, etomica.data.IDataSource)
  • etomica.normalmode.DataSourceImposedFEFit (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.normalmode.DataSourceImposedFEHistogram (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.data.DataSourceIndependentSimple (implements etomica.data.DataSourceIndependent)
  • etomica.modules.glass.DataSourceMSD (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceMSDcorP (implements etomica.data.DataSourceIndependent, etomica.modules.glass.DataSourceMSD.MSDSink, etomica.data.IDataSink, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceMSDcorP.DataSourceMSDcovP (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePercolation (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePercolation.Chi4Source (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePercolation.ImmFractionByTypeSource (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePercolation.ImmFractionSource (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePercolation.PercolationByImmFrac (implements etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePercolation0 (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourcePMSDHistory (implements etomica.data.DataSourceIndependent, etomica.modules.glass.DataSourceMSD.MSDSink, etomica.data.IDataSink, etomica.data.IDataSource)
  • etomica.normalmode.DataSourcePMu (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.normalmode.DataSourcePN (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.data.DataSourcePoints (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.data.DataSourcePositionedBoltzmannFactor (implements etomica.data.DataSourcePositioned)
  • etomica.modules.glass.DataSourceQ4 (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.DataSourceQ4.MeterChi4 (implements etomica.data.IDataSource)
  • etomica.data.DataSourceRmsVelocity (implements etomica.data.DataSourceAtomic, etomica.data.DataSourceIndependent, etomica.data.IDataSource, java.io.Serializable)
  • etomica.data.DataSourceScalar (implements etomica.data.IDataSource)
    • etomica.data.AccumulatorHistory.DataSourceCount
    • etomica.data.DataSourceAcceptanceRatio
      • etomica.data.DataSourceAcceptanceProbability
    • etomica.data.DataSourceAtomDistance
    • etomica.normalmode.DataSourceAvgPressure
    • etomica.normalmode.DataSourceAvgPressure2
    • etomica.data.DataSourceCountCollisions
    • etomica.data.DataSourceCountSteps (implements java.io.Serializable)
    • etomica.data.DataSourceCountTime
    • etomica.normalmode.DataSourceMuRoot
    • etomica.normalmode.DataSourceMuRoot.DataSourceMuRootDPressure
    • etomica.normalmode.DataSourceMuRoot.DataSourceMuRootDU
    • etomica.normalmode.DataSourceMuRoot.DataSourceMuRootPressure
    • etomica.normalmode.DataSourceMuRoot.DataSourceMuRootVacancyConcentration
    • etomica.normalmode.DataSourceMuRoot1
    • etomica.normalmode.DataSourceMuRoot1.DataSourceMuRootPressure
    • etomica.normalmode.DataSourceMuRoot1.DataSourceMuRootVacancyConcentration
    • etomica.normalmode.DataSourceMuRootPMatch
    • etomica.normalmode.DataSourceMuRootPMatch.DataSourceMuRootPressure
    • etomica.normalmode.DataSourceMuRootPMatch.DataSourceMuRootVacancyConcentration
    • etomica.modules.glass.DataSourcePrevTime
    • etomica.modules.droplet.DropletAtomicGraphic.DataSourceVaporDensity
    • etomica.modules.insertion.InsertionGraphic.MeterWidom (implements etomica.integrator.IntegratorHard.CollisionListener)
    • etomica.normalmode.MeterAPIPotentialEnergy
    • etomica.data.meter.MeterAvgBondLength
    • etomica.models.nitrogen.MeterBoltzmannDirect
    • etomica.cavity.MeterContactRatio (implements etomica.integrator.IntegratorHard.CollisionListener)
    • etomica.modules.chainequilibrium.MeterConversion
    • etomica.data.meter.MeterDensity
    • etomica.modules.catalysis.MeterDensityCO
    • etomica.modules.catalysis.MeterDensityCO2
    • etomica.modules.catalysis.MeterDensityO2
    • etomica.modules.mu.MeterDensitySides
    • etomica.association.MeterDimerMoleFraction
    • etomica.data.meter.MeterDipoleSumSquared1site
    • etomica.data.meter.MeterDipoleSumSquaredTIP4PWater
    • etomica.models.nitrogen.MeterDirectInitPert
    • etomica.normalmode.MeterDisplacementMoleculeRMS
    • etomica.normalmode.MeterDisplacementRMS
    • etomica.modules.materialfracture.MeterElongation
    • etomica.modules.colloid.MeterEnd2End
    • etomica.modules.rheology.MeterEndToEnd
    • etomica.data.meter.MeterEnergy
    • etomica.modules.adsorption.MeterExcessAdsorbed
    • etomica.dcvgcmd.MeterFlux (implements etomica.data.IDataSource)
    • etomica.modules.dcvgcmd.MeterFlux (implements etomica.data.IDataSource)
    • etomica.modules.multiharmonic.MeterFreeEnergy (implements etomica.data.IDataSource)
    • etomica.normalmode.MeterHarmonicCoordinate
    • etomica.normalmode.MeterHarmonicEnergy
    • etomica.normalmode.MeterHarmonicEnergyFromMove
    • etomica.normalmode.MeterJacobian
    • etomica.data.meter.MeterKineticEnergy
    • etomica.data.meter.MeterKineticEnergyFromIntegrator
    • etomica.data.meter.MeterKineticEnergyRigid
    • etomica.modules.nucleation.MeterLargestCluster
    • etomica.modules.materialfracture.MeterLoad
    • etomica.data.meter.MeterLocalDensity
    • etomica.data.meter.MeterLocalMoleFraction
    • etomica.mappedvirial.MeterMappedU
    • etomica.mappedvirial.MeterMappedVirial
    • etomica.mappedvirial.MeterMappedVirialV
    • etomica.normalmode.MeterMaxExpansion
    • etomica.data.meter.MeterMeanSquareDisplacement
    • etomica.data.meter.MeterMoleculeTemperature (implements etomica.data.DataSourceMolecular)
    • etomica.data.meter.MeterMoleFraction
    • etomica.data.meter.MeterNMolecules (implements etomica.data.DataSourceMolecular)
    • etomica.modules.rheology.MeterNormalStress
    • etomica.models.nitrogen.MeterOrientationOrderParameter
    • etomica.cavity.MeterPairedFraction (implements etomica.integrator.IntegratorHard.CollisionListener)
    • etomica.spin.heisenberg.MeterPairSum
    • etomica.normalmode.MeterPhiDeviation
    • etomica.data.meter.MeterPotentialEnergy
      • etomica.normalmode.SimEinStep2.MeterPotentialEnergyComposite
      • etomica.normalmode.SimEinStep2HCP.MeterPotentialEnergyComposite
      • etomica.normalmode.SimOverlapSoftSphereEin.MeterPotentialEnergyComposite
      • etomica.normalmode.SimOverlapSoftSphereEinHarm.MeterPotentialEnergyComposite
    • etomica.data.meter.MeterPotentialEnergyFromIntegrator
    • etomica.data.meter.MeterPressure
    • etomica.modules.vle.MeterPressure2
    • etomica.cavity.MeterPressureCollisionCount (implements etomica.integrator.IntegratorHard.CollisionListener)
    • etomica.data.meter.MeterPressureHard (implements etomica.integrator.IntegratorHard.CollisionListener)
      • etomica.modules.pistoncylinder.DataSourceWallPressure
      • etomica.modules.osmosis.MeterOsmoticPressure
    • etomica.data.meter.MeterPressureMolecular
    • etomica.normalmode.MeterPressureSuperBox
    • etomica.data.meter.MeterRadiusGyration
    • etomica.osmoticvirial.MeterRmin
    • etomica.osmoticvirial.MeterRminSpecies
    • etomica.data.meter.MeterRMSD
    • etomica.models.nitrogen.MeterRotPerturbMolecule
    • etomica.spin.ising.MeterSpin (implements etomica.data.IDataSource)
    • etomica.spin.heisenberg.MeterSpinMSquare (implements etomica.data.IDataSource)
    • etomica.modules.materialfracture.MeterStrain
    • etomica.modules.materialfracture.MeterStress
    • etomica.data.meter.MeterTemperature
    • etomica.normalmode.MeterThetaDeviation
    • etomica.modules.rheology.MeterViscosity
    • etomica.data.meter.MeterVolume
    • etomica.interfacial.MeterWallForce
    • etomica.interfacial.MeterWallPosition
    • etomica.modules.sam.MeterWallPressure
    • etomica.data.meter.MeterWidomInsertion
    • etomica.liquidLJ.MeterWidomInsertionP
    • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceBias
    • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceChiSlope
    • etomica.modules.multiharmonic.mbar.MultiharmonicGraphicMC.DataSourceFE
    • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceUa
    • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceUa2
    • etomica.normalmode.SimOverlapLJModule.MeterPotentialEnergyDifference
  • etomica.modules.glass.DataSourceStrings (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.data.DataSourceTensorVirialHard (implements etomica.data.IDataSource, etomica.integrator.IntegratorHard.CollisionListener, java.io.Serializable)
    • etomica.modules.interfacial.DataSourceTensorVirialHardProfile (implements etomica.data.DataSourceIndependent)
  • etomica.modules.interfacial.DataSourceTensorVirialHardProfile.DataSourceVirialProfile (implements etomica.data.IDataSource)
  • etomica.data.DataSourceUniform (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.modules.glass.DataSourceVAC (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.virial.overlap.DataSourceVirialOverlap (implements etomica.overlap.IntegratorOverlap.ReferenceFracSource)
  • etomica.modules.catalysis.DataSourceWallPressureCatalysis (implements etomica.data.IDataSource, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.modules.mu.DataSourceWallPressureMu (implements etomica.data.IDataSource, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.data.DataSplitter (implements etomica.data.IDataSink)
  • etomica.data.DataStreamAction (implements etomica.action.IAction, java.io.Serializable)
    • etomica.action.ResetAccumulators
      • etomica.action.ResetAccumulatorsAveraged
  • etomica.server.resources.data.DataStreamResource
  • etomica.server.dao.DataStreamStore.DataPlumbing
  • etomica.server.resources.data.DataStreamWebsocket
  • etomica.server.resources.data.DataStreamWebsocket.DataAndInfoEncoder (implements javax.websocket.Encoder.Text<T>)
  • etomica.data.DataTableWriter (implements etomica.data.DataLogger.DataWriter)
  • etomica.data.DataTag
  • etomica.graphics.DataTagBag
  • etomica.data.types.DataTensor (implements etomica.data.IData)
  • etomica.data.types.DataVector (implements etomica.data.IData, java.io.Serializable)
  • etomica.virial.overlap.DataVirialOverlap (implements etomica.overlap.IntegratorOverlap.ReferenceFracSource)
  • etomica.virial.overlap.DataVirialOverlap.FullResult
  • etomica.virial.cluster.DCF
  • etomica.util.Debug
  • etomica.graph.operations.Decorate (implements etomica.graph.operations.Binary)
  • etomica.graph.operations.Decorate.DecorateParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.DecorateWertheim2Site (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DecorateWertheim2Site.DecorateWertheimParameters2Site (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.DecorateWertheim2SiteRho (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DecorateWertheim2SiteRho.DecorateWertheimParameters2Site (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.DecorateWertheim3SiteRho (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DecorateWertheim3SiteRho.DecorateWertheimParameters3Site (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.DecorateWertheimNaphthalene2Rho (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DecorateWertheimNaphthalene2Rho.DecorateNaphthalene2Site (implements etomica.graph.operations.Parameters)
  • etomica.graph.iterators.DefaultIterator (implements etomica.graph.model.GraphIterator)
  • org.jmol.util.DefaultLogger (implements org.jmol.util.LoggerInterface)
  • etomica.graph.iterators.DefaultPermutator (implements etomica.graph.model.Permutator)
  • etomica.graph.view.rasterizer.DefaultSVGConverterController (implements etomica.graph.view.rasterizer.SVGConverterController)
  • etomica.graphics.DefaultToolbar
  • etomica.graph.operations.Delete (implements etomica.graph.operations.Binary)
  • etomica.graph.operations.DeleteEdge (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DeleteEdgeParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.view.rasterizer.DestinationType
  • etomica.graphics.Device
    • etomica.graphics.DeviceBox (implements javax.swing.event.ChangeListener, etomica.graphics.DeviceBoxValueChangedListener)
    • etomica.graphics.DeviceButton
      • etomica.graphics.DeviceToggleButton
    • etomica.graphics.DeviceButtonGroup
    • etomica.zeolite.DeviceButtonSingle
    • etomica.normalmode.DeviceCellNum3DSlider
    • etomica.normalmode.DeviceCellNumXYSlider
    • etomica.graphics.DeviceCheckBox
    • etomica.normalmode.DeviceEigenvaluesSlider
    • etomica.graphics.DeviceRunControls
    • etomica.graphics.DeviceSelector
    • etomica.graphics.DeviceSlider
      • etomica.graphics.DeviceNSelector
    • etomica.graphics.DeviceSpinner
    • etomica.graphics.DeviceThermoSelector
    • etomica.graphics.DeviceThermoSlider
    • etomica.heVLE.DeviceThermoSliderGEMC
    • etomica.graphics.DeviceToggleRadioButtons
    • etomica.graphics.DeviceTrioControllerButton
    • etomica.normalmode.DeviceWaveVectorSlider
  • etomica.graphics.Device.ActionSet (implements etomica.action.IAction)
  • etomica.graphics.DeviceDelaySlider
  • etomica.graphics.DevicePlotPoints
  • etomica.graphics.DeviceSpinner.SpinnerListener (implements javax.swing.event.ChangeListener, java.io.Serializable)
  • etomica.graphics.DeviceTable
  • etomica.graphics.DeviceTrioControllerButton.ComponentEventControllerButton (implements java.awt.event.ComponentListener)
  • etomica.AlkaneEH.DHS_NVT.DipoleSourceDHS (implements etomica.molecule.DipoleSource)
  • etomica.dielectric.DHS_NVT.DipoleSourceDHS (implements etomica.molecule.DipoleSource)
  • etomica.atom.DiameterHashByElement (implements etomica.atom.DiameterHash)
  • etomica.atom.DiameterHashByType (implements etomica.atom.DiameterHash)
    • etomica.atom.DiameterHashByElementType
    • etomica.modules.glass.DiameterHashGlass
  • etomica.graph.operations.DifByConstant (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DifByConstant.DifByConstantParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.DifByEdge (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DifByNode (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.DifParameters (implements etomica.graph.operations.Parameters)
  • etomica.units.dimensions.Dimension (implements java.io.Serializable)
    • etomica.units.dimensions.Angle
    • etomica.units.dimensions.Area
    • etomica.units.dimensions.Charge
    • etomica.units.dimensions.CompoundDimension
    • etomica.units.dimensions.Current
    • etomica.units.dimensions.DimensionRatio
    • etomica.units.dimensions.Dipole
    • etomica.units.dimensions.ElectricPotential
    • etomica.units.dimensions.Energy
    • etomica.units.dimensions.Force
    • etomica.units.dimensions.Fraction
    • etomica.units.dimensions.Frequency
    • etomica.units.dimensions.Length
    • etomica.units.dimensions.LuminousIntensity
    • etomica.units.dimensions.Mass
    • etomica.units.dimensions.Momentum
    • etomica.units.dimensions.Null
    • etomica.units.dimensions.Power
    • etomica.units.dimensions.Pressure
    • etomica.units.dimensions.Pressure2D
    • etomica.units.dimensions.Quantity
    • etomica.units.dimensions.Temperature
    • etomica.units.dimensions.Time
    • etomica.units.dimensions.Undefined
    • etomica.units.dimensions.Velocity
    • etomica.units.dimensions.Viscosity
    • etomica.units.dimensions.Volume
    • etomica.units.dimensions.Wavenumber
  • etomica.models.OPLS.DipoleSourceAceticAcid (implements etomica.molecule.DipoleSource)
  • etomica.models.water.DipoleSourceWater (implements etomica.molecule.DipoleSource)
  • etomica.virial.simulations.DirectSamplingTargetQCArReferenceAzizAr
  • etomica.graphics.Display
    • etomica.graphics.DisplayBox
    • etomica.graphics.DisplayPlot (implements etomica.data.DataSetListener)
    • etomica.graphics.DisplayPlotXChart (implements etomica.data.DataSetListener)
    • etomica.graphics.DisplayPolytope (implements etomica.action.IAction)
    • etomica.graphics.DisplayTable (implements etomica.data.DataTableListener)
    • etomica.graphics.DisplayTextBox (implements javax.swing.event.ChangeListener, etomica.data.IDataSink)
      • etomica.graphics.DisplayTimer
    • etomica.graphics.DisplayTextBoxesCAE (implements etomica.data.IDataSink)
  • etomica.graphics.DisplayBoxCanvasG3DSys.OrientedAgentSource (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
  • etomica.graphics.DisplayBoxCanvasG3DSys.OrientedSite
    • etomica.graphics.DisplayBoxCanvasG3DSys.OrientedFullSite
  • etomica.graphics.DisplayPlot.DataWriter (implements java.awt.event.ActionListener)
  • etomica.graphics.DisplayPlot.RawDataWindowOpener (implements java.awt.event.ActionListener)
  • etomica.AlkaneEH.DLJ_NVT_1site.DipoleSourceDLJ (implements etomica.molecule.DipoleSource)
  • etomica.dielectric.DLJ_NVT_1site.DipoleSourceDLJ (implements etomica.molecule.DipoleSource)
  • etomica.virial.simulations.DoubleAssociationSitesFluid2Pt
  • etomica.virial.simulations.DoubleAssociationSitesFluid3Pt
  • etomica.virial.simulations.DoubleAssociationSitesFluid4Pt
  • etomica.math.DoubleRange (implements java.io.Serializable)
  • etomica.modules.droplet.DropletGraphic.ModifierBoxSize (implements etomica.modifier.Modifier)
  • etomica.graph.operations.DropOrphanNodes
  • etomica.server.resources.EchoServer
  • etomica.graph.model.impl.EdgeImpl (implements etomica.graph.model.Edge)
  • etomica.graph.iterators.EdgelessIterator (implements etomica.graph.model.GraphIterator)
  • org.jmol.util.Eigen
  • org.jmol.util.Eigen.EigenSort (implements java.util.Comparator<T>)
  • etomica.chem.elements.Element (implements etomica.chem.elements.IElement, java.io.Serializable)
    • etomica.chem.elements.ElementChemical
      • etomica.chem.elements.Argon
      • etomica.chem.elements.Carbon
      • etomica.chem.elements.Chlorine
      • etomica.chem.elements.Copper
      • etomica.chem.elements.Fluorine
      • etomica.chem.elements.Helium
      • etomica.chem.elements.Hydrogen
      • etomica.chem.elements.Iron
      • etomica.chem.elements.Nitrogen
      • etomica.chem.elements.Oxygen
      • etomica.chem.elements.Silver
      • etomica.chem.elements.Sodium
      • etomica.chem.elements.Sulfur
      • etomica.chem.elements.Tin
      • etomica.chem.elements.Tungsten
    • etomica.chem.elements.ElementSimple
  • org.jmol.util.Elements
  • g3dsys.images.Ellipse3D
  • etomica.modules.droplet.EllipseDisplayAction
  • etomica.graph.engine.impl.EnvironmentImpl (implements etomica.graph.engine.Environment)
  • etomica.modules.adsorption.EOSSW
    • etomica.modules.adsorption.EOSSWPatel
    • etomica.modules.adsorption.VEOS3SW
  • etomica.math.ErfcBenchmark
  • org.jmol.util.Escape
  • etomica.models.rowley.EthanolPotentialHelper
  • etomica.models.rowley.EthanolRouteParams
  • etomica.modules.EtomicaModuleInfo
  • etomica.veos.bigdecimal.Euler
  • etomica.veos.bigdecimal.EulerPhi
  • etomica.util.EventManager<E>
  • java.util.EventObject (implements java.io.Serializable)
    • java.awt.AWTEvent
      • etomica.graphics.DeviceBoxValueChangedEvent
  • etomica.potential.EwaldSummation (implements etomica.potential.PotentialSoft)
  • etomica.potential.EwaldSummation.MyCharge
  • etomica.potential.EwaldSummation.P2EwaldReal (implements etomica.potential.PotentialSoft)
  • etomica.potential.EwaldSumMolecules (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.EwaldSumMolecules.MyCharge
  • etomica.virial.cluster.ExchangeSplit (implements etomica.graph.operations.Unary)
  • etomica.virial.cluster.ExchangeSplit.ExchangeSplitParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.Exclude (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.ExcludeParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.Exp (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.ExpParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.Factor (implements etomica.graph.operations.Unary)
  • etomica.graph.property.FactorFFT
  • etomica.veos.bigdecimal.Factorial
  • etomica.math.FactorialBenchmark
  • etomica.graph.operations.FactorOnce (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.FactorOnce.FactorOnceParameters (implements etomica.graph.operations.Parameters)
  • etomica.math.numerical.FastFourierTransform (implements java.io.Serializable)
  • etomica.compatibility.Feature (implements java.io.Serializable)
    • etomica.compatibility.NumericFeature (implements java.io.Serializable)
    • etomica.compatibility.StringFeature (implements java.io.Serializable)
  • etomica.compatibility.FeatureSet (implements java.io.Serializable)
  • etomica.graph.property.FFTDecomposition (implements etomica.graph.property.Property)
  • etomica.graph.property.FFTDecomposition.ComparatorStrand (implements java.util.Comparator<T>)
  • etomica.graph.property.FieldNodeCountMax (implements etomica.graph.property.Property)
  • g3dsys.images.Figure
    • g3dsys.images.Axes
    • g3dsys.images.Ball
    • g3dsys.images.Bond
    • g3dsys.images.Box
    • g3dsys.images.Ellipse
    • g3dsys.images.ImageShell
    • g3dsys.images.Line
    • g3dsys.images.Triangle
  • etomica.models.nitrogen.FindPairMoleculeIndex
  • etomica.models.nitrogen.FindPairMoleculeIndexBetaN2
  • etomica.models.nitrogen.FindTransitionTemperature
  • etomica.math.numerical.FiniteDifferenceDerivative (implements etomica.math.function.FunctionMultiDimensionalDifferentiable)
  • etomica.models.nitrogen.FiniteDifferenceDerivativeCGNitrogenBeta
  • etomica.math.numerical.FittingFunctionNonLinear
  • etomica.graph.iterators.FixedEdgeCountIterator (implements etomica.graph.model.GraphIterator)
  • etomica.math.discrete.FixedSumIterator
  • etomica.interfacial.FixedWall (implements etomica.integrator.IntegratorListenerMD)
  • java.text.Format (implements java.lang.Cloneable, java.io.Serializable)
    • java.text.NumberFormat
      • etomica.util.ScientificFormat
  • etomica.virial.simulations.FourAssociationSitesFluid2Pt
  • etomica.math.function.Function.Abs (implements etomica.math.function.FunctionDifferentiable, java.io.Serializable)
  • etomica.math.function.Function.Chop (implements etomica.math.function.Function, java.io.Serializable)
  • etomica.math.function.Function.Constant (implements etomica.math.function.FunctionDifferentiable, java.io.Serializable)
  • etomica.math.function.Function.Exp (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible, java.io.Serializable)
  • etomica.math.function.Function.Identity (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible, java.io.Serializable)
  • etomica.math.function.Function.Linear (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible, java.io.Serializable)
  • etomica.math.function.Function.Log (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible, java.io.Serializable)
  • etomica.math.function.Function.Reciprocal (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible, java.io.Serializable)
  • etomica.math.function.Function.Sqrt (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible, java.io.Serializable)
  • etomica.math.function.FunctionChain (implements etomica.math.function.Function, java.io.Serializable)
  • etomica.math.function.FunctionChain.Link (implements java.io.Serializable)
  • etomica.spin.heisenberg.FunctionCosIntegral
  • g3dsys.control.G3DSys
  • etomica.math.Gamma
  • org.jmol.util.GData
    • org.jmol.g3d.Graphics3D
  • org.jmol.util.Geodesic
  • etomica.modules.glass.GlassClustering
  • etomica.modules.glass.GlassGraphic.MeterFromDumps (implements etomica.data.IDataSource)
  • etomica.modules.glass.GlassGraphic.SFacButtonAction (implements etomica.action.IAction)
  • etomica.modules.glass.GlassProd
  • etomica.graph.iterators.filters.GlobalFilter (implements etomica.graph.model.GraphIterator)
    • etomica.graph.iterators.filters.IdenticalGraphFilter
    • etomica.graph.iterators.filters.IsomorphismFilter
  • etomica.graph.iterators.filters.GlobalFilter.SignatureMaker
    • etomica.graph.operations.IsoFree.IsoFreeParams (implements etomica.graph.operations.Parameters)
  • etomica.util.Grabber
  • etomica.util.Grabber.ActionCornerSetter (implements javax.swing.Action)
  • etomica.util.Grabber.CornerData
  • etomica.util.Grabber.CornerSetListener (implements java.awt.event.MouseListener)
  • etomica.util.Grabber.DefaultMouseListener (implements java.awt.event.MouseListener)
  • etomica.config.GrainBoundaryConfiguration (implements etomica.config.Configuration, java.io.Serializable)
  • etomica.config.GrainBoundaryTiltConfiguration (implements etomica.config.Configuration)
  • etomica.graph.operations.GraphExtract
  • etomica.graph.model.GraphFactory
  • etomica.graph.model.impl.GraphImpl (implements etomica.graph.model.Graph)
  • etomica.graph.model.GraphList (implements java.util.Set<E>)
  • etomica.graph.viewer.GraphMap
  • etomica.graph.util.GraphNumber
  • etomica.graph.operations.GraphOp.GraphOpNull (implements etomica.graph.operations.GraphOp)
  • etomica.graph.operations.GraphOpMaxRoot (implements etomica.graph.operations.GraphOp)
  • etomica.veos.HardRods (implements etomica.veos.BetaSource)
  • etomica.statmech.HardSphere
  • etomica.statmech.HardSphereFluid
  • etomica.statmech.HardSphereSolid
  • etomica.veos.bigdecimal.Harmonic
  • etomica.normalmode.HarmonicCrystal
  • etomica.normalmode.HarmonicCrystalSoftSphereBCC
  • etomica.normalmode.HarmonicCrystalSoftSphereFCC
  • etomica.normalmode.HarmonicCrystalSoftSphereHCP
  • etomica.normalmode.HarmonicCrystalSsFccNxy
  • etomica.graph.property.HasArticulationPair (implements etomica.graph.property.Property)
  • etomica.graph.property.HasArticulationPoint (implements etomica.graph.property.Property)
  • etomica.graph.property.HasEdgeCount (implements etomica.graph.property.Property)
  • etomica.virial.GUI.components.HashMapPotentialNonBonded
  • etomica.graph.property.HasNodalPoint (implements etomica.graph.property.Property)
  • etomica.graph.property.HasNoRootEdge (implements etomica.graph.property.Property)
  • etomica.graph.property.HasSimpleArticulationPoint (implements etomica.graph.property.Property)
  • com.codahale.metrics.health.HealthCheck
    • etomica.server.health.BasicHealthCheck
  • org.jmol.util.Hermite
  • org.jmol.g3d.HermiteRenderer
  • etomica.normalmode.HessianFromFile
  • etomica.data.HistogramDataSource (implements etomica.data.IDataSource)
  • etomica.data.histogram.HistogramDiscrete (implements etomica.data.histogram.Histogram)
  • etomica.data.histogram.HistogramNotSoSimple (implements etomica.data.histogram.Histogram, java.io.Serializable)
  • etomica.data.histogram.HistogramReweightedData (implements etomica.data.histogram.Histogram, java.io.Serializable)
  • etomica.data.histogram.HistogramSimple (implements etomica.data.histogram.Histogram, java.io.Serializable)
    • etomica.data.histogram.HistogramCollapsing
    • etomica.data.histogram.HistogramExpanding
  • etomica.data.history.HistoryCollapsing (implements etomica.data.history.History)
    • etomica.data.history.HistoryCollapsingDiscard
      • etomica.data.history.HistoryCollapsingAverage
  • etomica.data.history.HistoryComplete (implements etomica.data.history.History)
  • etomica.data.history.HistoryScrolling (implements etomica.data.history.History, java.io.Serializable)
    • etomica.modules.statistics.HistoryStatistics
  • etomica.virial.HNCGenerator
  • etomica.normalmode.HSNPT.ActionSummer (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.action.IAction)
  • etomica.normalmode.HSNPT.MyAgent
  • etomica.virial.HypernettedChain
  • etomica.math.geometry.Hypersphere (implements java.io.Serializable, etomica.math.geometry.Shape)
    • etomica.math.geometry.Circle
    • etomica.math.geometry.Sphere
  • etomica.graph.operations.IdenticalFree (implements etomica.graph.operations.Unary)
  • etomica.virial.IEGenerator
    • etomica.virial.PYGenerator
  • etomica.veos.bigdecimal.Ifactor (implements java.lang.Cloneable, java.lang.Comparable<T>)
  • etomica.lattice.IndexIteratorIncreasing
  • etomica.lattice.IndexIteratorRectangular (implements etomica.lattice.IndexIterator, etomica.lattice.IndexIteratorSizable, java.io.Serializable)
  • etomica.lattice.IndexIteratorReflecting (implements etomica.lattice.IndexIterator)
  • etomica.lattice.IndexIteratorTriangular (implements etomica.lattice.IndexIterator, java.io.Serializable)
  • etomica.lattice.IndexIteratorTriangularPermutations (implements etomica.lattice.IndexIterator, java.io.Serializable)
  • etomica.util.collections.IndexMap<V> (implements java.util.Map<K,V>)
  • etomica.meta.properties.InstanceProperty (implements etomica.meta.properties.Property)
  • etomica.graph.operations.Int (implements etomica.graph.operations.Unary)
  • org.jmol.util.Int2IntHash
  • etomica.integrator.Integrator
    • etomica.math.numerical.AkimaSplineSmootherApp.IntegratorSmoother
    • etomica.math.numerical.AkimaSplineSmootherDyApp.IntegratorSmoother
    • etomica.integrator.IntegratorBox
      • etomica.dcvgcmd.IntegratorDCVGCMD
      • etomica.modules.dcvgcmd.IntegratorDCVGCMD
      • etomica.action.IntegratorDimerApproach
      • etomica.dimer.IntegratorDimerMin
      • etomica.dimer.IntegratorDimerRT (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
      • etomica.dimer.IntegratorEnergyMap
      • etomica.modules.adsorption.IntegratorHybrid
      • etomica.kmc.IntegratorKMC
      • etomica.kmc.IntegratorKMCCluster
      • etomica.integrator.IntegratorMC
        • etomica.tmmc.IntegratorTMMC
      • etomica.integrator.IntegratorMD (implements etomica.box.BoxEventListener)
        • etomica.modules.droplet.IntegratorDroplet (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
        • etomica.integrator.IntegratorGear4 (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
        • etomica.integrator.IntegratorHard (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.nbr.list.INeighborListListener)
          • etomica.normalmode.IntegratorHardMDMC
          • etomica.modules.pistoncylinder.IntegratorHardPiston
        • etomica.normalmode.IntegratorHarmonic
        • etomica.modules.rheology.IntegratorPolymer
        • etomica.integrator.IntegratorRigidIterative (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, etomica.species.SpeciesAgentManager.AgentSource<E>)
        • etomica.integrator.IntegratorRigidMatrixIterative (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, etomica.species.SpeciesAgentManager.AgentSource<E>)
        • etomica.integrator.IntegratorVelocityVerlet (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
          • etomica.interfacial.IntegratorFixedWall
          • etomica.freeenergy.npath.IntegratorImageHarmonicMD
          • etomica.freeenergy.npath.IntegratorImageMultistepMD
          • etomica.freeenergy.npath.IntegratorMDHarmonicMC
          • etomica.modules.sam.IntegratorVelocityVerletSAM
        • etomica.rotation.IntegratorVelocityVerletQuaternion (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, etomica.species.SpeciesAgentManager.AgentSource<E>)
        • etomica.integrator.IntegratorVelocityVerletShake (implements etomica.species.SpeciesAgentManager.AgentSource<E>)
          • etomica.integrator.IntegratorVelocityVerletRattle
        • etomica.integrator.IntegratorVerlet (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
    • etomica.integrator.IntegratorManagerMC
      • etomica.integrator.IntegratorGEMC
      • etomica.overlap.IntegratorOverlap
      • etomica.virial.overlap.IntegratorOverlap
      • etomica.integrator.IntegratorPT
      • etomica.osmoticvirial.IntegratorRGEMC
  • etomica.action.IntegratorActionAdapter (implements etomica.action.IntegratorAction, java.io.Serializable)
    • etomica.action.IntegratorReset
    • etomica.zeolite.ZeoliteSimStart
  • etomica.modules.dcvgcmd.IntegratorDCVGCMD.Mu1Modulator (implements etomica.modifier.Modifier)
  • etomica.modules.dcvgcmd.IntegratorDCVGCMD.Mu2Modulator (implements etomica.modifier.Modifier)
  • etomica.modules.droplet.IntegratorDroplet.MyAgent
  • etomica.integrator.IntegratorEvent
  • etomica.integrator.IntegratorEventManager
  • etomica.integrator.IntegratorGear4.Agent
  • etomica.integrator.IntegratorHard.Agent
  • etomica.integrator.IntegratorHard.CollisionHandlerUp (implements etomica.potential.PotentialCalculation)
  • etomica.integrator.IntegratorListenerAction (implements etomica.integrator.IntegratorListener)
  • etomica.integrator.IntegratorListenerGroupSeries (implements etomica.integrator.IntegratorListener)
  • etomica.integrator.IntegratorMD.VectorSource (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
  • etomica.integrator.IntegratorPT.BoxTracker (implements etomica.data.IDataSource, etomica.util.IListener<E>, java.io.Serializable)
  • etomica.integrator.IntegratorRigidIterative.AtomForceAgent (implements etomica.integrator.Integrator.Forcible, java.io.Serializable)
  • etomica.integrator.IntegratorRigidIterative.MoleculeAgent (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable, java.io.Serializable)
  • etomica.integrator.IntegratorRigidMatrixIterative.BoxImposePbcMolecule (implements etomica.action.IAction)
  • etomica.rotation.IntegratorVelocityVerletQuaternion.MoleculeAgent (implements java.io.Serializable)
  • etomica.rotation.IntegratorVelocityVerletQuaternion.MyTypeAgent (implements java.io.Serializable)
  • etomica.integrator.IntegratorVelocityVerletShake.BondConstraints
  • etomica.integrator.IntegratorVerlet.Agent
  • etomica.modules.catalysis.InteractionTracker (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.modules.catalysis.InteractionTracker.CatalysisAgent
  • etomica.modules.interfacial.InterfacialSWGraphic.ModifierBoxSize (implements etomica.modifier.Modifier)
  • etomica.graph.engine.Interpreter (implements etomica.graph.engine.ConsoleReader)
  • etomica.graph.operations.IntParameters (implements etomica.graph.operations.Parameters)
  • etomica.virial.IntSet (implements java.lang.Comparable<T>)
  • etomica.graph.property.IsArticulationPair
  • etomica.graph.property.IsArticulationPoint
  • etomica.graph.property.IsBiconnected (implements etomica.graph.property.Property)
  • etomica.graph.property.IsConnected (implements etomica.graph.property.Property)
  • etomica.graph.property.IsFFT (implements etomica.graph.property.Property)
  • etomica.virial.IsFFT (implements etomica.graph.property.Property)
  • etomica.graph.operations.IsoFree (implements etomica.graph.operations.Unary)
  • etomica.potential.IteratorDirective
  • etomica.molecule.iterator.IteratorFactory (implements java.io.Serializable)
  • etomica.graph.iterators.IteratorToSet
  • etomica.graph.iterators.IteratorWrapper (implements etomica.graph.model.GraphIterator)
  • org.jmol.viewer.JmolConstants
  • org.jmol.util.JmolFont
  • com.fasterxml.jackson.databind.JsonSerializer<T> (implements com.fasterxml.jackson.databind.jsonFormatVisitors.JsonFormatVisitable)
    • com.fasterxml.jackson.databind.ser.std.StdSerializer<T> (implements com.fasterxml.jackson.databind.jsonFormatVisitors.JsonFormatVisitable, com.fasterxml.jackson.databind.jsonschema.SchemaAware, java.io.Serializable)
      • etomica.server.serializers.DataSerializer
      • etomica.server.serializers.PropertySerializer
      • etomica.meta.serializers.VectorSerializer
      • etomica.server.serializers.WrapperSerializer
  • etomica.modules.crystalviewer.LatticeEditor
  • etomica.modules.crystalviewer.LatticeEditor.NModifier (implements etomica.modifier.Modifier)
  • etomica.lattice.LatticePlane (implements etomica.atom.AtomTest, java.io.Serializable)
  • etomica.lattice.LatticeSum
  • etomica.lattice.LatticeSumCrystal
  • etomica.models.nitrogen.LatticeSumCrystalMolecular
  • etomica.normalmode.LatticeSumMolecularCrystal
  • etomica.graph.engine.Launcher
  • etomica.graph.engine.Launcher.ConsoleWindowRunnable (implements java.lang.Runnable)
  • etomica.statmech.LennardJones
  • etomica.math.numerical.LinearFit
  • etomica.units.gui.Lister
  • etomica.units.systems.LJ.LJUnit (implements etomica.units.Unit)
  • etomica.simulation.prototypes.LJMC3D.Graphic
  • etomica.simulation.prototypes.LJMC3DDimer.Graphic
  • etomica.liquidLJ.LjMd3D.ValueCache
  • etomica.liquidLJ.LjMd3D.VolumeBias (implements etomica.math.function.IFunction)
  • etomica.liquidLJ.LjMd3Dv2y
  • etomica.modules.vle.LJQB2
  • etomica.virial.simulations.LJTSRefLJ
  • etomica.math.LnFactorialBenchmark
  • etomica.graph.iterators.filters.LocalFilter (implements etomica.graph.model.GraphIterator)
    • etomica.graph.iterators.filters.FieldNodeCount
    • etomica.graph.iterators.filters.PropertyFilter
  • org.jmol.util.Logger
  • etomica.graph.view.rasterizer.Main (implements etomica.graph.view.rasterizer.SVGConverterController)
  • etomica.Main
  • etomica.graph.view.rasterizer.Main.AbstractOptionHandler (implements etomica.graph.view.rasterizer.Main.OptionHandler)
    • etomica.graph.view.rasterizer.Main.NoValueOptionHandler
    • etomica.graph.view.rasterizer.Main.SingleValueOptionHandler
      • etomica.graph.view.rasterizer.Main.ColorOptionHandler
      • etomica.graph.view.rasterizer.Main.FloatOptionHandler
        • etomica.graph.view.rasterizer.Main.TimeOptionHandler
      • etomica.graph.view.rasterizer.Main.RectangleOptionHandler
  • etomica.models.rowley.MassProductionVirialRowleyAlcohol
  • etomica.graph.isomorphism.Match
  • etomica.util.MathTiming
  • org.jmol.util.Matrix3f (implements java.io.Serializable)
  • org.jmol.util.Matrix4f (implements java.io.Serializable)
  • etomica.graph.operations.MaxIsomorph (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.MaxIsomorph.MaxIsomorphParameters (implements etomica.graph.operations.Parameters)
    • etomica.graph.operations.MaxIsomorphWertheim.MaxIsomorphWertheimParameters
  • etomica.graph.operations.MaxIsomorphWertheim (implements etomica.graph.operations.Unary)
  • etomica.statmech.MaxwellBoltzmann
  • etomica.statmech.MaxwellBoltzmann.Distribution (implements etomica.math.function.Function, java.io.Serializable)
  • etomica.virial.MayerD2FDT2Spherical (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerDFDTSpherical (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerDFQFHDTSpherical (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerEGeneral (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.MayerENonGeneral (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.MayerESpherical (implements etomica.virial.MayerFunction)
    • etomica.virial.MayerEHardSphere
  • etomica.virial.MayerFunctionNonAdditiveFull (implements etomica.virial.MayerFunctionNonAdditive)
  • etomica.virial.MayerFunctionProductGeneral (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerFunctionSum (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerFunctionSumGeneral (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerFunctionTemperature (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerFunctionThreeBody (implements etomica.virial.MayerFunctionNonAdditive)
    • etomica.virial.MayerFunctionMolecularThreeBody
    • etomica.virial.MayerFunctionSphericalThreeBody
  • etomica.virial.MayerGeneral (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerGeneralAtomic (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerGeneralSpherical (implements etomica.virial.MayerFunction)
    • etomica.virial.MayerSphericalPlus
  • etomica.virial.MayerHardSphere (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerHSMixture (implements etomica.virial.MayerFunction)
  • etomica.virial.cluster.MayerIonicDiagram1qbond
  • etomica.virial.cluster.MayerIonicDiagram2qbonds
  • etomica.virial.cluster.MayerIonicDiagram4qbonds
  • etomica.virial.MayerPTAtt (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerPUGeneral (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.MayerSphericalPTAtt (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerSSSeries (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerWell (implements etomica.virial.MayerFunction)
  • etomica.virial.MayerXSpherical (implements etomica.virial.MayerFunction)
  • etomica.integrator.mcmove.MCMove
    • etomica.integrator.mcmove.MCMoveBox
      • etomica.freeenergy.npath.MCMoveAtomSwap
      • etomica.association.MCMoveBiasUB
      • etomica.association.MCMoveBiasUBMolecule (implements etomica.integrator.mcmove.MCMoveMolecular)
      • etomica.integrator.mcmove.MCMoveBoxStep (implements etomica.integrator.mcmove.MCMoveStepDependent)
        • etomica.integrator.mcmove.MCMoveAtom
          • etomica.association.MCMoveAtomDimer
          • etomica.integrator.mcmove.MCMoveAtomInRegion
          • etomica.association.MCMoveAtomMonomer
          • etomica.interfacial.MCMoveAtomNbr
          • etomica.association.MCMoveAtomNoSmer
          • etomica.freeenergy.npath.MCMoveAtomNPath
          • etomica.association.MCMoveAtomSmer
          • etomica.virial.MCMoveClusterAtom
          • etomica.virial.MCMoveClusterAtomChainHSTail
          • etomica.virial.MCMoveClusterAtomDiscrete
          • etomica.virial.MCMoveClusterAtomHSChain
            • etomica.virial.MCMoveClusterAtomHSChainMix
            • etomica.virial.MCMoveClusterAtomSQWChain
          • etomica.virial.MCMoveClusterAtomHSRing
          • etomica.virial.MCMoveClusterAtomHSTree
            • etomica.virial.MCMoveClusterAtomHSTreeMix
            • etomica.virial.MCMoveClusterAtomSQWTree
          • etomica.virial.MCMoveClusterAtomInBox
          • etomica.virial.MCMoveClusterAtomMulti
          • etomica.virial.MCMoveClusterAtomQ
          • etomica.virial.MCMoveClusterAtomRotateMulti
          • etomica.virial.MCMoveClusterPolyhedraChain
          • etomica.virial.MCMoveClusterPolyhedraTree
          • etomica.integrator.mcmove.MCMoveRotate
            • etomica.spin.heisenberg.MCMoveRotate3Pair
            • etomica.association.MCMoveRotateNoSmer
            • etomica.spin.heisenberg.MCMoveRotatePair
          • etomica.association.MCMoveRotateAssociated
        • etomica.freeenergy.npath.MCMoveAtomCoupled
        • etomica.normalmode.MCMoveAtomCoupled
        • etomica.normalmode.MCMoveAtomCoupledBennet
        • etomica.normalmode.MCMoveAtomCoupledUmbrella
        • etomica.normalmode.MCMoveAtomSuperBox
        • etomica.integrator.mcmove.MCMoveBoxSize
        • etomica.virial.MCMoveChangeBondLength
        • etomica.virial.MCMoveClusterAngleBend
        • etomica.virial.MCMoveClusterAngleBendAceticAcid
        • etomica.association.MCMoveDimer
        • etomica.integrator.mcmove.MCMoveDimer
        • etomica.association.MCMoveDimerRotate
        • etomica.integrator.mcmove.MCMoveDimerRotate
        • etomica.normalmode.MCMoveHarmonicStep
        • etomica.integrator.mcmove.MCMoveMolecule (implements etomica.integrator.mcmove.MCMoveMolecular)
          • etomica.starpolymer.MCMoveBondLength
          • etomica.virial.MCMoveClusterMolecule
            • etomica.starpolymer.MCMoveClusterBondLength
            • etomica.starpolymer.MCMoveClusterConformationMDTest
            • etomica.virial.MCMoveClusterMoleculeLayerMove
            • etomica.starpolymer.MCMoveClusterRotateArm
          • etomica.starpolymer.MCMoveClusterMoleculeHSChain
          • etomica.virial.MCMoveClusterMoleculeHSChain
          • etomica.starpolymer.MCMoveClusterMoleculeHSChainB3
          • etomica.virial.MCMoveClusterMoleculeMulti
          • etomica.virial.MCMoveClusterRotateCH3
          • etomica.virial.MCMoveClusterTorsionAceticAcid
          • etomica.virial.MCMoveClusterTorsionAlkaneEH
          • etomica.virial.MCMoveClusterTorsionMulti
          • etomica.virial.MCMoveClusterWiggleAceticAcid
          • etomica.virial.MCMoveClusterWiggleAlkaneEH
          • etomica.virial.MCMoveClusterWiggleMulti
          • etomica.association.MCMoveMoleculeMonomer
          • etomica.association.MCMoveMoleculeSmer
          • etomica.starpolymer.MCMoveRotateArm
          • etomica.integrator.mcmove.MCMoveRotateMolecule3D
            • etomica.virial.MCMoveClusterRotateMolecule3D
            • etomica.virial.MCMoveClusterRotateMoleculeMulti
            • etomica.association.MCMoveMoleculeRotateAssociated
            • etomica.normalmode.MCMoveRotateMoleculePhiTheta
          • etomica.models.nitrogen.MCMoveRotateMolecule3DConstraint
          • etomica.models.nitrogen.MCMoveRotateMolecule3DFixedAngle
          • etomica.models.nitrogen.MCMoveRotateMolecule3DN2AveCosThetaConstraint
          • etomica.models.nitrogen.MCMoveRotateMolecule3DSuperBox (implements etomica.integrator.mcmove.MCMoveMolecular)
          • etomica.integrator.mcmove.MCMoveTorsionAceticAcid
          • etomica.starpolymer.MCMoveWiggle
          • etomica.integrator.mcmove.MCMoveWiggleAceticAcid
        • etomica.normalmode.MCMoveMoleculeCoupled
        • etomica.models.nitrogen.MCMoveMoleculeCoupledInitPert
        • etomica.models.nitrogen.MCMoveMoleculeCoupledSuperBox (implements etomica.integrator.mcmove.MCMoveMolecular)
        • etomica.normalmode.MCMovePhaseAngle
        • etomica.normalmode.MCMoveSingleMode
        • etomica.association.MCMoveSmer
        • etomica.association.MCMoveSmerRotate
        • etomica.integrator.mcmove.MCMoveVolume
        • etomica.association.MCMoveVolumeAssociated (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
        • etomica.association.MCMoveVolumeAssociatedMolecule (implements etomica.integrator.mcmove.MCMoveMolecular, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>)
        • etomica.normalmode.MCMoveVolumeMonoclinic
        • etomica.normalmode.MCMoveVolumeMonoclinicAngle
        • etomica.normalmode.MCMoveVolumeMonoclinicScaled
        • etomica.models.nitrogen.MCMoveVolumeN2
        • etomica.normalmode.MCMoveVolumeSolid
        • etomica.normalmode.MCMoveVolumeSolidNPTMolecular
          • etomica.normalmode.MCMoveVolumeSolidNPTMolecularOriented
        • etomica.normalmode.MCMoveWV
      • etomica.virial.MCMoveClusterDiagram
      • etomica.virial.MCMoveClusterReptateMulti
      • etomica.virial.MCMoveClusterRingPartialRegrow
      • etomica.virial.MCMoveClusterRingRegrow
      • etomica.virial.MCMoveClusterRingRegrowExchange
      • etomica.virial.MCMoveClusterRingRegrowOrientation
      • etomica.virial.MCMoveClusterRingScale
      • etomica.normalmode.MCMoveEinsteinCrystal
      • etomica.osmoticvirial.MCMoveGeometricCluster
      • etomica.normalmode.MCMoveHarmonic
        • etomica.normalmode.MCMoveHarmonicEin
      • etomica.integrator.mcmove.MCMoveInsertDelete
        • etomica.integrator.mcmove.MCMoveInsertDeleteBiased
          • etomica.integrator.mcmove.MCMoveInsertDeleteLatticeVacancy (implements etomica.util.IListener<E>)
          • etomica.integrator.mcmove.MCMoveInsertDeleteVacancy (implements etomica.util.IListener<E>)
        • etomica.dcvgcmd.MyMCMove
        • etomica.modules.adsorption.MyMCMove
        • etomica.modules.dcvgcmd.MyMCMove
      • etomica.modules.multiharmonic.MCMoveMultiHarmonic
      • etomica.integrator.mcmove.MCMoveSemigrand
      • etomica.spin.heisenberg.MCMoveSpinCluster
      • etomica.spin.ising.MCMoveSpinFlip
      • etomica.modules.glass.MCMoveSwap
    • etomica.osmoticvirial.MCMoveGeometricClusterRestrictedGE
    • etomica.integrator.mcmove.MCMoveMoleculeExchange
      • etomica.integrator.mcmove.MCMoveMoleculeExchangeVLE
    • etomica.integrator.mcmove.MCMoveStep (implements etomica.integrator.mcmove.MCMoveStepDependent)
      • etomica.integrator.mcmove.MCMoveVolumeExchange
        • etomica.integrator.mcmove.MCMoveVolumeExchangeVLE
    • etomica.virial.paralleltempering.MCMoveSwapCluster (implements etomica.integrator.IntegratorPT.MCMoveSwap)
    • etomica.integrator.mcmove.MCMoveSwapConfiguration (implements etomica.integrator.IntegratorPT.MCMoveSwap)
  • etomica.integrator.mcmove.MCMoveEvent (implements etomica.util.IEvent)
    • etomica.integrator.mcmove.MCMoveTrialCompletedEvent (implements java.io.Serializable)
    • etomica.integrator.mcmove.MCMoveTrialFailedEvent
    • etomica.integrator.mcmove.MCMoveTrialInitiatedEvent (implements java.io.Serializable)
  • etomica.integrator.mcmove.MCMoveIDBiasAction (implements etomica.action.IAction)
  • etomica.integrator.mcmove.MCMoveInsertDeleteLatticeVacancy.AtomIteratorBruteForce (implements etomica.atom.iterator.AtomIteratorAtomDependent, etomica.atom.iterator.AtomsetIteratorDirectable)
  • etomica.integrator.mcmove.MCMoveInsertDeleteLatticeVacancy.AtomIteratorNbr (implements etomica.atom.iterator.AtomIteratorAtomDependent, etomica.atom.iterator.AtomsetIteratorDirectable)
  • etomica.integrator.mcmove.MCMoveInsertDeleteLatticeVacancy.AtomIteratorNbrCell (implements etomica.atom.iterator.AtomIteratorAtomDependent, etomica.atom.iterator.AtomsetIteratorDirectable)
  • etomica.osmoticvirial.MCMoveListenerRGE (implements etomica.util.IListener<E>)
  • etomica.integrator.mcmove.MCMoveManager
  • etomica.integrator.mcmove.MCMoveOverlapListener (implements etomica.util.IListener<E>)
  • etomica.virial.paralleltempering.MCMoveSwapCluster.SwapFactory (implements etomica.integrator.IntegratorPT.MCMoveSwapFactory, java.io.Serializable)
  • etomica.integrator.mcmove.MCMoveSwapConfiguration.SwapFactory (implements etomica.integrator.IntegratorPT.MCMoveSwapFactory, java.io.Serializable)
  • etomica.integrator.mcmove.MCMoveTracker
    • etomica.integrator.mcmove.MCMoveStepTracker
  • etomica.association.MCMoveVolumeAssociated.Agent
  • etomica.association.MCMoveVolumeAssociatedMolecule.Agent
  • org.jmol.util.Measure
  • org.jmol.util.MeshSurface
  • etomica.graph.view.rasterizer.Messages
  • etomica.graph.model.impl.MetadataImpl (implements etomica.graph.model.Metadata)
  • javax.swing.plaf.metal.MetalTheme
    • javax.swing.plaf.metal.DefaultMetalTheme
      • etomica.graphics.EtomicaTheme
  • etomica.normalmode.MeterAtomicDisplacement (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource)
  • etomica.models.nitrogen.MeterBoltzmann (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterBoltzmann (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterBoltzmannHarmonic (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterBoltzmannHTTP (implements etomica.data.IDataSource)
  • etomica.models.nitrogen.MeterBoltzmannRotPerturb (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterBoltzmannTarget (implements etomica.data.IDataSource)
  • etomica.starpolymer.MeterBondLength (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.cavity.MeterCavityMapped (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.modules.chainequilibrium.MeterChainLength (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.DataSourceIndependent, etomica.data.IDataSource, java.io.Serializable)
  • etomica.modules.chainequilibrium.MeterChainLength.AtomTag
  • etomica.modules.nucleation.MeterClusterSizes (implements etomica.data.IDataSource)
  • etomica.modules.glass.MeterCorrelation (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.glass.MeterCorrelationSelf (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.normalmode.MeterDADB (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterDDP (implements etomica.data.IDataSource)
  • etomica.modules.droplet.MeterDeformation (implements etomica.data.IDataSource)
  • etomica.metastable.MeterDensityDistribution (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterDihedralAngle (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.modules.reactionequilibrium.MeterDimerFraction (implements etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterDipoleMoment (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterDipoleMoment.ForceTorque (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable)
  • etomica.data.meter.MeterDipoleSumSquaredMappedAverage (implements etomica.data.IDataSource, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>)
  • etomica.normalmode.MeterDirectSamplingHarmonic (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterDirectSamplingTarget (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterDP (implements etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterEnergyMeanField (implements etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterEnergyMeanField.PotentialCalculationCSsum (implements etomica.potential.PotentialCalculation)
  • etomica.association.GCPMWater.MeterEnthalpyVolume (implements etomica.data.IDataSource)
  • etomica.modules.rosmosis.MeterFlux (implements etomica.data.IDataSource, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>)
  • etomica.modules.glass.MeterGs (implements etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.normalmode.MeterHarmonicSingleEnergy (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterHyperVirial (implements etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveraging (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveraging3Pair (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingCorrelation (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingCorrelation.CorrelationAgent (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable)
  • etomica.spin.heisenberg.MeterMappedAveragingCV (implements etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingFreeEnergy (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingPair (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingPairExcess (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingSum (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingSum.MoleculeAgent (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable)
  • etomica.spin.heisenberg.MeterMappedAveragingVSum (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingVSum3Pair (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMappedAveragingVSumPair (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.mappedRdf.MeterMappedRdf (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.mbar.MeterMBAR (implements etomica.data.IDataSource, etomica.integrator.IntegratorListener)
  • etomica.spin.heisenberg.MeterMeanField (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.data.IDataSource)
  • etomica.spin.heisenberg.MeterMeanField.ForceTorque (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable)
  • etomica.mappedvirial.MeterMeanForce (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource)
  • etomica.data.meter.MeterMomentumCOM (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.models.nitrogen.MeterNormalizedCoord (implements etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.models.nitrogen.MeterNormalizedCoordBeta (implements etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.normalmode.MeterNormalMode (implements etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.modules.interfacial.MeterOrientation (implements etomica.data.DataSourceMolecular)
  • etomica.models.nitrogen.MeterOrientationDistribution (implements etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.modules.rosmosis.MeterOsmoticPressure (implements etomica.data.IDataSource)
  • etomica.overlap.MeterOverlap (implements etomica.overlap.AlphaSource, etomica.data.IDataSource)
  • etomica.normalmode.MeterOverlapSwitch (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterPlaneSlip (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterPositionCOM (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.liquidLJ.MeterPotentialEnergyCutoff (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterPressureByVolumeChange (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.data.meter.MeterPressureByVolumeChange.DataSourceExp (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterPressureHardTensor (implements etomica.data.IDataSource, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.data.meter.MeterPressureTensor (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterPressureTensorFromIntegrator (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.data.meter.MeterProfile (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource, java.io.Serializable)
  • etomica.data.meter.MeterProfileByAtoms (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource, java.io.Serializable)
  • etomica.data.meter.MeterProfileByVolume (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource, java.io.Serializable)
    • etomica.modules.adsorption.MeterProfileByVolumeAdsorption
  • etomica.liquidLJ.MeterPU (implements etomica.data.IDataSource)
  • etomica.liquidLJ.MeterPUCut (implements etomica.data.IDataSource)
  • etomica.liquidLJ.MeterPUCutLS (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterRDF (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource)
    • etomica.cavity.MeterCavity
    • etomica.modules.pistoncylinder.MeterRDFCylinder
  • etomica.cavity.MeterRDFMapped (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource, etomica.integrator.IntegratorHard.CollisionListener)
  • etomica.data.meter.MeterRDFPC (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource)
  • etomica.models.nitrogen.MeterRotationDistributionGroup (implements etomica.action.IAction, etomica.data.IDataSource, java.io.Serializable)
  • etomica.normalmode.MeterSamplingHarmonic (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterSamplingTarget (implements etomica.data.IDataSource)
  • etomica.virial.MeterSamplingWeight (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.normalmode.MeterSolidDA (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterSolidDACut (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterSolidMirror (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterSolidProps (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterSolidPropsLJ (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterStructureFactor (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.data.meter.MeterStructureFactor.AtomSignalSourceByType (implements etomica.data.meter.MeterStructureFactor.AtomSignalSource)
    • etomica.modules.glass.AtomSignalMobility
    • etomica.modules.glass.AtomSignalMotion
  • etomica.modules.glass.MeterStructureFactorStress3 (implements etomica.data.IDataSource)
  • etomica.models.nitrogen.MeterTargetRPMolecule (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterTargetTP (implements etomica.data.IDataSource)
  • etomica.models.nitrogen.MeterTargetTPMolecule (implements etomica.data.IDataSource)
  • etomica.data.meter.MeterTensorVelocity (implements etomica.data.DataSourceAtomic, java.io.Serializable)
  • etomica.modules.sam.MeterTilt (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterTilt (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterTiltHistogram (implements etomica.data.DataSourceIndependent, etomica.action.IAction, etomica.data.IDataSource)
  • etomica.normalmode.MeterTiltRotation (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterTiltRotationHistogram (implements etomica.action.IAction, etomica.data.IDataSource)
  • etomica.normalmode.MeterTiltRotationStdev (implements etomica.data.IDataSource)
  • etomica.modules.multiharmonic.umbrella.MeterUmbrella (implements etomica.data.IDataSource)
  • etomica.virial.MeterVirial (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.virial.MeterVirialBD (implements etomica.data.IDataSource)
  • etomica.virial.MeterVirialBDBin (implements etomica.action.IAction)
  • etomica.virial.MeterVirialBDBinMultiThreaded (implements etomica.action.IAction)
  • etomica.virial.MeterVirialBDBinMultiThreaded.MyData
  • etomica.virial.MeterVirialBinMultiThreaded (implements etomica.action.IAction)
  • etomica.virial.MeterVirialBinMultiThreaded.MyData
  • etomica.virial.MeterVirialEBinMultiThreaded (implements etomica.action.IAction)
  • etomica.virial.MeterVirialEBinMultiThreaded.MyData
    • etomica.virial.MeterVirialEBinMultiThreaded.MyDataCov
  • etomica.virial.MeterVirialExternalField (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldConfined (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldOverlapConfined (implements etomica.virial.ClusterWeightSumWall.DataSourceClusterWall, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldOverlapConfined.RangeComparator (implements java.util.Comparator<T>)
  • etomica.virial.MeterVirialExternalFieldOverlapConfinedRho (implements etomica.virial.ClusterWeightSumWall.DataSourceClusterWall, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldOverlapConfinedSW (implements etomica.virial.ClusterWeightSumWall.DataSourceClusterWall, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldOverlapRho (implements etomica.virial.ClusterWeightSumWall.DataSourceClusterWall, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldRho (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldSW (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.virial.MeterVirialExternalFieldSW.Near (implements java.lang.Comparable<T>)
  • etomica.virial.MeterVirialIC (implements etomica.data.IDataSource, java.io.Serializable)
  • etomica.virial.MeterVirialSWWE (implements etomica.data.IDataSource)
  • etomica.interfacial.MeterWallForce.PotentialCalculationWallForce (implements etomica.potential.PotentialCalculation)
  • etomica.cavity.MeterWidomCavity (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.liquidLJ.MeterWidomInsertionCorrection (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkBennetHarmonic (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkBennetTarget (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkHarmonicBennet (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkHarmonicPhaseSpace (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkHarmonicTargetandReweighting (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkHarmonicUmbrella (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkTargetBennet (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkTargetHarmonicandReweighting (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkTargetPhaseSpace (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkTargetUmbrella (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkUmbrellaHarmonic (implements etomica.data.IDataSource)
  • etomica.normalmode.MeterWorkUmbrellaTarget (implements etomica.data.IDataSource)
  • etomica.models.rowley.MethanolPotentialHelper
  • etomica.models.traPPE.MethanolPotentialHelper
  • etomica.models.rowley.MethanolRouteParams
  • etomica.models.clathrates.MinimizationTIP4P.ChargeAgentSourceRPM (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
  • etomica.virial.GUI.models.ModelAlertMsgDialog
  • etomica.virial.GUI.models.ModelAlkaneLengthSelection
  • etomica.virial.GUI.models.ModelSelectedSpecies
  • etomica.virial.GUI.models.ModelSimulationConstructor
  • etomica.virial.GUI.models.ModelSimulationEnvironment
  • etomica.virial.GUI.models.ModelSpeciesSelection
  • etomica.virial.GUI.models.ModelTemperatureAndSteps
  • etomica.normalmode.ModifierCells3D (implements etomica.modifier.Modifier, java.io.Serializable)
  • etomica.modifier.ModifierGeneral (implements etomica.modifier.Modifier, java.io.Serializable)
    • etomica.modifier.ModifierFunctionWrapper
  • etomica.modifier.ModifierNMolecule (implements etomica.modifier.Modifier, java.io.Serializable)
  • etomica.modules.pistoncylinder.ModifierPistonPressure (implements etomica.modifier.Modifier)
  • etomica.modules.adsorption.ModifierPMu (implements etomica.modifier.Modifier)
  • etomica.virial.simulations.ModifierTPI (implements etomica.modifier.Modifier)
  • etomica.normalmode.ModifierXCells2D (implements etomica.modifier.Modifier, java.io.Serializable)
  • etomica.normalmode.ModifierYCells2D (implements etomica.modifier.Modifier, java.io.Serializable)
  • etomica.modifier.ModifyAction (implements etomica.action.IAction, java.io.Serializable)
  • etomica.modifier.ModifyBooleanAction (implements etomica.action.IAction)
  • etomica.virial.GUI.models.MolecularModel2CLJQ_SpeciesCO2 (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModel2CLJQ_SpeciesEthane (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModel2CLJQ_SpeciesLJ (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelEMP2_SpeciesCO2 (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelExp6_SpeciesAlkane
  • etomica.virial.GUI.models.MolecularModelLJ_SpeciesLJ (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelLJQ_SpeciesLJ (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelSKS_SpeciesAlkane (implements etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelSPCE_SpeciesH2O (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelTRAPPE_SpeciesAlkane (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.virial.GUI.models.MolecularModelTrappe_SpeciesCO2 (implements java.lang.Cloneable, etomica.virial.GUI.models.IMolecularModel_SpeciesFactory)
  • etomica.molecule.Molecule (implements etomica.molecule.IMolecule, java.io.Serializable)
    • etomica.molecule.MoleculeOriented (implements etomica.molecule.IMoleculeOriented)
      • etomica.molecule.MoleculeOrientedDynamic (implements etomica.molecule.IMoleculeOrientedKinetic)
  • etomica.virial.MoleculeActionRelaxWater3P (implements etomica.action.MoleculeAction)
  • etomica.action.MoleculeActionTranslateTo (implements etomica.action.MoleculeAction, java.io.Serializable)
  • etomica.spin.heisenberg.MoleculeAgent (implements etomica.integrator.Integrator.Forcible, etomica.integrator.Integrator.Torquable)
  • etomica.molecule.MoleculeAgentManager<E> (implements etomica.box.BoxEventListener)
  • etomica.action.MoleculeChildAtomAction (implements etomica.action.MoleculeAction, java.io.Serializable)
  • etomica.molecule.iterator.MoleculeIteratorAll (implements etomica.molecule.iterator.MoleculesetIteratorPDT, java.io.Serializable)
  • etomica.molecule.iterator.MoleculeIteratorArrayListSimple (implements etomica.molecule.iterator.MoleculeIterator, java.io.Serializable)
    • etomica.molecule.iterator.MoleculeIteratorAllMolecules (implements etomica.molecule.iterator.MoleculeIteratorBoxDependent)
    • etomica.molecule.iterator.MoleculeIteratorArrayList (implements etomica.molecule.iterator.MoleculeIteratorMoleculeDependent)
    • etomica.molecule.iterator.MoleculeIteratorMolecule (implements etomica.molecule.iterator.MoleculeIteratorBoxDependent, etomica.molecule.iterator.MoleculesetIteratorPDT)
  • etomica.molecule.iterator.MoleculeIteratorSinglet (implements etomica.molecule.iterator.MoleculeIterator, etomica.molecule.iterator.MoleculeIteratorMoleculeDependent, java.io.Serializable)
  • etomica.meta.properties.MoleculeListProperty (implements etomica.meta.properties.Property)
  • etomica.nbr.list.molecule.MoleculeNeighborLists (implements java.io.Serializable)
  • etomica.molecule.MoleculePositionCOM (implements etomica.molecule.IMoleculePositionDefinition, java.io.Serializable)
  • etomica.molecule.MoleculePositionFirstAtom (implements etomica.molecule.IMoleculePositionDefinition, java.io.Serializable)
  • etomica.molecule.MoleculePositionGeometricCenter (implements etomica.molecule.IMoleculePositionDefinition, java.io.Serializable)
  • etomica.molecule.MoleculePositionGeometricCenterAlkaneEH (implements etomica.molecule.IMoleculePositionDefinition, java.io.Serializable)
  • etomica.molecule.MoleculePositionGeometricCenterPBC (implements etomica.molecule.IMoleculePositionDefinition, java.io.Serializable)
  • etomica.nbr.list.molecule.MoleculePotentialList (implements java.io.Serializable)
  • etomica.association.MoleculeSourceRandomDimer (implements etomica.molecule.MoleculeSource)
  • etomica.molecule.MoleculeSourceRandomMolecule (implements etomica.molecule.MoleculeSource, java.io.Serializable)
    • etomica.association.MoleculeSourceRandomMonomer
  • etomica.molecule.MoleculeToMoleculeListSpecies (implements etomica.molecule.MoleculeToIndex, etomica.molecule.MoleculeToMoleculeList, java.io.Serializable)
  • etomica.molecule.MoleculeToMoleculeSetFixed (implements etomica.molecule.MoleculeToIndex, etomica.molecule.MoleculeToMoleculeList, java.io.Serializable)
  • java.awt.event.MouseAdapter (implements java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.event.MouseWheelListener)
    • etomica.graphics.DisplayPlot.PopupListener
  • etomica.nbr.cell.molecule.Mpi1ACell (implements etomica.nbr.cell.molecule.MoleculesetIteratorCellular, etomica.molecule.iterator.MoleculesetIteratorPDT, java.io.Serializable)
  • etomica.nbr.cell.molecule.MpiAACell (implements etomica.nbr.cell.molecule.MoleculesetIteratorCellular, java.io.Serializable)
  • etomica.molecule.iterator.MpiInnerFixed (implements etomica.molecule.iterator.MoleculesetIterator, java.io.Serializable)
  • etomica.molecule.iterator.MpiInnerVariable (implements etomica.molecule.iterator.MoleculesetIterator, java.io.Serializable)
  • etomica.molecule.iterator.MpiInterArrayList (implements etomica.molecule.iterator.MoleculesetIterator, java.io.Serializable)
  • etomica.molecule.iterator.MpiInterspecies1A (implements etomica.molecule.iterator.MoleculesetIteratorPDT, java.io.Serializable)
  • etomica.molecule.iterator.MpiInterspeciesAA (implements etomica.molecule.iterator.MoleculesetIteratorBoxDependent)
  • etomica.molecule.iterator.MpiIntraArrayList (implements etomica.molecule.iterator.MoleculesetIterator, java.io.Serializable)
  • etomica.molecule.iterator.MpiIntraspecies1A (implements etomica.molecule.iterator.MoleculesetIteratorPDT, java.io.Serializable)
  • etomica.molecule.iterator.MpiIntraspeciesAA (implements etomica.molecule.iterator.MoleculesetIteratorBoxDependent, java.io.Serializable)
  • etomica.molecule.iterator.MpiMolecule (implements etomica.molecule.iterator.MoleculesetIteratorPDT, java.io.Serializable)
  • etomica.zeolite.MSDCoordWriter (implements etomica.action.IAction)
  • etomica.zeolite.MSDCoordWriter.AfterPBC (implements etomica.action.IAction)
  • etomica.zeolite.MSDProcessor
  • etomica.virial.MuFGeneral (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.MuGeneral (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.modules.mu.MuGraphic.ModifierAtomDiameter (implements etomica.modifier.Modifier)
  • etomica.modules.mu.MuGraphic.ModifierEpsilon (implements etomica.modifier.Modifier)
  • etomica.modules.mu.MuGraphic.ModifierLambda (implements etomica.modifier.Modifier)
  • etomica.graph.operations.Mul (implements etomica.graph.operations.Binary)
  • etomica.graph.operations.Mul.MulParameters (implements etomica.graph.operations.Parameters)
    • etomica.graph.operations.MulFlexible.MulFlexibleParameters
  • etomica.graph.operations.MulFlexible (implements etomica.graph.operations.Binary)
  • etomica.graph.operations.MulScalar (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.MulScalarParameters (implements etomica.graph.operations.Parameters)
  • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSinkReweightedDeltaU (implements etomica.data.IDataSink)
  • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceAlphaAlpha (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.umbrella.MultiharmonicGraphicMC.DataSourceAlphaAlpha (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.mbar.MultiharmonicGraphicMC.DataSourceAlphaChi (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceAlphaChi (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.umbrella.MultiharmonicGraphicMC.DataSourceAlphaChi (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceAlphaFE (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC.DataSourceFunctionRaw (implements etomica.data.DataSourceIndependent, etomica.data.IDataSource)
  • etomica.graph.operations.MulUnion (implements etomica.graph.operations.Binary)
  • etomica.modules.clustergenerator.MyApplet.BondInteractionTypeToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.BondTypeToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.ComponentEventMyPanel (implements java.awt.event.ComponentListener)
  • etomica.modules.clustergenerator.MyApplet.ConnectedToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.GraphicsToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.MouseEventClusterPanel (implements java.awt.event.MouseListener)
  • etomica.modules.clustergenerator.MyApplet.NumbersToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.PointsToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.ReeHooverToggler (implements java.awt.event.ItemListener)
  • etomica.modules.clustergenerator.MyApplet.Starter (implements java.awt.event.ActionListener)
  • etomica.modules.clustergenerator.MyApplet.Stopper (implements java.awt.event.ActionListener)
  • etomica.veos.MyBigDecimal (implements etomica.veos.IBigValue)
  • etomica.eigenstuff.MyEigenvalueDecomposition (implements java.io.Serializable)
  • etomica.graph.operations.NCopy (implements etomica.graph.operations.Unary)
  • etomica.nbr.cell.NeighborCellManager (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.space.BoundaryEventListener, etomica.box.BoxCellManager)
  • etomica.nbr.cell.molecule.NeighborCellManagerMolecular (implements etomica.space.BoundaryEventListener, etomica.box.BoxCellManager, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
    • etomica.nbr.list.molecule.NeighborCellManagerListMolecular
  • etomica.nbr.cell.NeighborIteratorCell (implements etomica.nbr.NeighborIterator)
  • etomica.nbr.site.NeighborIteratorSite (implements etomica.nbr.NeighborIterator)
  • etomica.nbr.list.NeighborListAgentSource (implements etomica.box.BoxAgentManager.BoxAgentSource<E>)
    • etomica.modules.colloid.NeighborListManagerColloid.NeighborListAgentSourceColloid
    • etomica.nbr.list.NeighborListManagerSlanty.NeighborListSlantyAgentSource
  • etomica.nbr.list.NeighborListEventManager
  • etomica.nbr.list.molecule.NeighborListEventManagerMolecular
  • etomica.nbr.list.NeighborListManager (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.integrator.IntegratorListener)
    • etomica.modules.colloid.NeighborListManagerColloid
    • etomica.nbr.list.NeighborListManagerSlanty
  • etomica.nbr.list.NeighborListManager.AtomPotential1ListSource (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
  • etomica.nbr.list.molecule.NeighborListManagerMolecular (implements etomica.integrator.IntegratorListener, etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
    • etomica.nbr.list.molecule.NeighborListManagerSlantyMolecular
  • etomica.nbr.list.molecule.NeighborListManagerMolecular.MoleculePotential1ListSource (implements etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>, java.io.Serializable)
  • etomica.nbr.site.NeighborSiteManager (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.box.BoxCellManager)
  • etomica.math.numerical.NewtonMinimization
  • etomica.graph.model.impl.NodeImpl (implements etomica.graph.model.Node)
  • etomica.graph.isomorphism.NodePair
  • etomica.normalmode.NormalModeEigenGetter
  • etomica.normalmode.NormalModes1DHR (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModes2D (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModes3D (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModesFromFile (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModesMolecular (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModesPotential (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModesSoftSpherical (implements etomica.normalmode.NormalModes)
  • etomica.normalmode.NormalModesVariable
  • org.jmol.util.Normix
  • etomica.modules.nucleation.NucleationGraphic.ModifierDensity (implements etomica.modifier.Modifier)
  • etomica.graph.property.NumFieldNodes
  • etomica.graph.property.NumRootNodes
  • etomica.space1d.Orientation1D (implements etomica.space.IOrientation)
  • etomica.space2d.Orientation2D (implements etomica.space2d.IOrientation2D, java.io.Serializable)
  • etomica.space3d.Orientation3D (implements etomica.space3d.IOrientation3D, java.io.Serializable)
  • etomica.molecule.OrientationCalcAtom (implements etomica.molecule.OrientationCalc)
  • etomica.space3d.OrientationFull3D (implements etomica.space3d.IOrientationFull3D, java.io.Serializable)
  • etomica.virial.OrnsteinZernike
  • etomica.modules.osmosis.Osmosis.InitializeMolecules
  • etomica.modules.osmosis.Osmosis.MyWall (implements etomica.graphics.Drawable)
  • etomica.graphics.OverflowShift
  • etomica.normalmode.P1ConstraintNbr (implements etomica.potential.IPotentialAtomic)
  • etomica.normalmode.P1ConstraintNbrHcp (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P1HardBoundary (implements etomica.graphics.Drawable, etomica.potential.PotentialHard)
  • etomica.potential.P1HydrogenMielke (implements etomica.potential.IPotential, etomica.potential.P1IntraMolecular)
    • etomica.potential.P1HydrogenMielke.P1HydrogenMielkeAtomic (implements etomica.potential.IPotentialAtomic, etomica.potential.P1IntraMolecular)
    • etomica.potential.P1HydrogenMielke.P2HydrogenMielkeAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.virial.P1IntraLambda (implements etomica.potential.IPotentialAtomic, etomica.potential.P1IntraMolecular)
  • etomica.potential.P1IntraSimple
  • etomica.modules.sam.P1Sinusoidal (implements etomica.potential.IPotential, etomica.potential.PotentialSoft)
  • etomica.modules.droplet.P1Smash (implements etomica.potential.PotentialSoft)
  • etomica.modules.materialfracture.P1Tension (implements etomica.potential.PotentialSoft)
  • etomica.modules.adsorption.P1Wall (implements etomica.potential.PotentialHard)
  • etomica.modules.colloid.P1Wall (implements etomica.potential.PotentialHard)
  • etomica.models.co2.P2CO2H2OWheatley (implements etomica.potential.IPotentialTorque)
  • etomica.models.co2.P2CO2H2OWheatley.P2CO2H2OSC (implements etomica.potential.IPotentialAtomic)
  • etomica.models.co2.P2CO2H2OWheatley.P2CO2H2OSCTI (implements etomica.potential.IPotentialAtomic)
  • etomica.models.co2.P2CO2Hellmann (implements etomica.potential.IPotentialTorque)
  • etomica.models.co2.P2CO2Hellmann.P2CO2SC (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2DiscreteFeynmanHibbs (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P2EffectiveFeynmanHibbs (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P2HardBondedList.BondArrayList
  • etomica.potential.P2HardWrapper (implements etomica.potential.PotentialHard)
  • etomica.potential.P2HePCKLJS.P2HeQFH (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P2HePCKLJS.P2HeTI (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P2HeSimplified.P2HeQFH (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P2HeSimplified.P2HeTI (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P2HydrogenHinde (implements etomica.potential.IPotential)
    • etomica.potential.P2HydrogenHinde.P2HydrogenHindeAtomic (implements etomica.potential.IPotentialAtomic)
    • etomica.potential.P2HydrogenHinde.P2HydrogenHindeMolecular (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.P2HydrogenHindeAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2HydrogenHindePatkowski (implements etomica.potential.IPotential)
    • etomica.potential.P2HydrogenHindePatkowski.P2HydrogenHindePatkowskiAtomic (implements etomica.potential.IPotentialAtomic)
    • etomica.potential.P2HydrogenHindePatkowski.P2HydrogenHindePatkowskiMolecular (implements etomica.potential.IPotential)
  • etomica.potential.P2HydrogenHindePatkowskiAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2HydrogenPatkowski (implements etomica.potential.IPotential)
    • etomica.potential.P2HydrogenPatkowski.P2HydrogenPatkowskiAtomic (implements etomica.potential.IPotentialAtomic)
    • etomica.potential.P2HydrogenPatkowski.P2HydrogenPatkowskiMolecular (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.P2HydrogenPatkowskiAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2MoleculeMonatomic (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.P2NitrogenHellmann (implements etomica.potential.IPotentialAtomic, etomica.potential.IPotentialTorque)
  • etomica.potential.P2NitrogenHellmann.P2N2QFH (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2O2Bartolomei (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2O2Bartolomei.P2O2TI (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2PotentialGroupBuilder
  • etomica.potential.P2PotentialGroupBuilder.ModelParams
  • etomica.potential.P2SemiclassicalAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2SemiclassicalMolecular (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.P2SemiclassicalMolecular.MoleculeInfoBrute (implements etomica.potential.P2SemiclassicalMolecular.MoleculeInfo)
  • etomica.modules.chainequilibrium.P2SquareWellBonded.RingResult
  • etomica.potential.P2WaterPotentialsJankowski (implements etomica.potential.IPotentialAtomic)
  • etomica.models.water.P2WaterSzalewicz (implements etomica.potential.IPotentialTorque)
  • etomica.models.water.P2WaterSzalewicz.P2H2OSC (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P2WCAP (implements etomica.potential.Potential2Spherical)
  • etomica.potential.P3AdditiveQChem
  • etomica.potential.P3AxilrodTeller (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P3AxilrodTeller.MyAgent
  • etomica.potential.P3HydrogenATM (implements etomica.potential.IPotential)
    • etomica.potential.P3HydrogenATM.P3HydrogenAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P3HydrogenManzhos (implements etomica.potential.IPotential)
    • etomica.potential.P3HydrogenManzhos.P3HydrogenManzhosMolecular (implements etomica.potential.IPotentialMolecular)
      • etomica.potential.P3HydrogenGarberoglioMolecular
  • etomica.potential.P3Induction (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P3Induction.MyAgent
  • etomica.potential.P3NitrogenHellmannNonAdditive (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.P3QChem
  • etomica.math.numerical.PadeApproximation
  • etomica.util.ParameterBase
    • etomica.osmoticvirial.AshtonWildingLJ.simParams
    • etomica.osmoticvirial.AshtonWildingOsmoticVirial.simParams
    • etomica.osmoticvirial.AshtonWildingVirial.simParams
    • etomica.virial.B3ForSphericallySymmetricU.DampingParams
    • etomica.virial.simulations.BnFlexibleContributionTraPPEUAMethanol.VirialParam
    • etomica.virial.BnPCJSDHe.BnPCJSDHeParams
    • etomica.virial.BnPYCHe.BnPYHeParams
    • etomica.AlkaneEH.CH4NVT.Param
    • etomica.models.clathrates.ClathrateHarmonicFE.SimParams
    • etomica.freeenergy.npath.ConfigFromFileLAMMPS.ConfigFromFileLAMMPSParam
    • etomica.AlkaneEH.DHS_NVT.Param
    • etomica.dielectric.DHS_NVT.Param
    • etomica.virial.simulations.DirectSamplingTargetQCArReferenceAzizAr.VirialLJParam
    • etomica.AlkaneEH.DLJ_NVT_1site.Param
    • etomica.dielectric.DLJ_NVT_1site.Param
    • etomica.virial.simulations.DoubleAssociationSitesFluid2Pt.VirialAssociatingFluidParam
    • etomica.virial.simulations.DoubleAssociationSitesFluid3Pt.VirialAssociatingFluidParam
    • etomica.virial.simulations.DoubleAssociationSitesFluid4Pt.VirialAssociatingFluidParam
    • etomica.eam.EFSTungsten.Params
    • etomica.virial.simulations.FourAssociationSitesFluid2Pt.VirialAssociatingFluidParam
    • etomica.osmoticvirial.GCRestrictedGibbsHS.simParams
    • etomica.osmoticvirial.GCWidomInsertHS.simParams
    • etomica.statmech.HardSphereSolid.EOSParams
    • etomica.normalmode.HarmonicCrystalSsFccNxy.Params
    • etomica.spin.heisenberg.Heisenberg.Param
    • etomica.spin.heisenberg.Heisenberg3Pair.Param
    • etomica.spin.heisenberg.HeisenbergPair.Param
    • etomica.normalmode.HSDimerNPT.HSMD3DParameters
    • etomica.simulation.prototypes.HSMD3D.HSMD3DParam
    • etomica.cavity.HSMDCavity.CavityParam
    • etomica.cavity.HSMDWidom.HSMDParam
    • etomica.normalmode.HSNPT.HSMD3DParameters
    • etomica.normalmode.HTTPSoftSphereApplet.SimOverlapTPSSParams
    • etomica.interfacial.LJMC.LjMC3DParams
    • etomica.surfacetension.LJMC.LJMCParams
    • etomica.liquidLJ.LjMC3D.LjMC3DParams
    • etomica.simulation.prototypes.LJMC3D.SimParams
    • etomica.simulation.prototypes.LJMC3DDimer.SimParams
    • etomica.interfacial.LJMD.LJMDParams
    • etomica.liquidLJ.LjMd3D.LjMd3DParams
    • etomica.liquidLJ.LjMd3Dv2y.LjMd3DParams
    • etomica.metastable.LJmuVT.LJMCParams
    • etomica.metastable.LJNPT.LJMCParams
    • etomica.metastable.LJNVT.LJMCParams
    • etomica.virial.simulations.LJTSRefLJ.VirialLJParam
    • etomica.normalmode.LJVacancyMin.SimOverlapParam
    • etomica.mappedvirial.MappedU.LJMDParams
    • etomica.mappedvirial.MappedVirialLJ.LJMDParams
    • etomica.mappedvirial.MappedVirialLJVGr.LJMDParams
    • etomica.models.clathrates.MinimizationTIP4P.SimParams
    • etomica.normalmode.MinimizeHCP.SimOverlapParam
    • etomica.osmoticvirial.NVTWidomInsertLJ.simParams
    • etomica.potential.P2QChemInterpolated.DampingParams
    • etomica.potential.P3AdditiveQChem.DampingParams
    • etomica.potential.P3QChem.DampingParams
    • etomica.math.numerical.PadeApproximation.VirialParam
    • etomica.polydisperseHS.PolydisperseHS.HSPolyParam
    • etomica.models.clathrates.ProtonDisorderGenerator.SimParams
    • etomica.modules.glass.ReadCluster.ReadClusterParams
    • etomica.virial.simulations.ReeHooverMC.VirialParam
    • etomica.normalmode.SimBennet.SimBennetParam
    • etomica.models.nitrogen.SimDirectBetaN2RP.SimOverlapParam
    • etomica.normalmode.SimEinStep1.SimOverlapParam
    • etomica.normalmode.SimEinStep1HCP.SimOverlapParam
    • etomica.normalmode.SimEinStep2.SimOverlapParam
    • etomica.normalmode.SimEinStep2HCP.SimOverlapParam
    • etomica.freeenergy.npath.SimFe.LjMC3DParams
    • etomica.association.GCPMWater.SimGCPMWaterMCNPT.GCPMWaterMCParam
    • etomica.association.GCPMWater.SimGCPMWaterMCNVT.GCPMWaterMCParam
    • etomica.modules.glass.SimGlass.GlassParams
      • etomica.modules.glass.GlassClustering.SimParams
      • etomica.modules.glass.GlassProd.SimParams
    • etomica.normalmode.SimHarmonicUmbrella.SimBennetParam
    • etomica.normalmode.SimHSMDVacancy.HSMDVParams
    • etomica.freeenergy.npath.SimIdealGas.LjMC3DParams
    • etomica.freeenergy.npath.SimLattice.LjMC3DParams
    • etomica.freeenergy.npath.SimLJ.LjMC3DParams
    • etomica.normalmode.SimLJHTTISuper.SimOverlapParam
    • etomica.normalmode.SimLJHTTISuperHCP.SimOverlapParam
    • etomica.normalmode.SimLJHTTISuperHCP2.SimOverlapParam
    • etomica.normalmode.SimLJHTTISuperSFMD.SimOverlapParam
    • etomica.normalmode.SimLJVacancy.LJParams
    • etomica.mappedRdf.SimMappedRdf.LJMDParams
    • etomica.normalmode.SimOverlap.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapAlphaN2TP.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapBetaN2RP.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapBetaN2RPScaling.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapBetaN2TP.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapDisorderedAlphaN2RPScaling.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapDisorderedAlphaN2TP.SimOverlapParam
    • etomica.normalmode.SimOverlapLJ.SimOverlapParam
    • etomica.normalmode.SimOverlapLJModule.SimOverlapParam
    • etomica.models.nitrogen.SimOverlapNitrogenModel.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphere.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereDP.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereEin.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereEinHarm.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereHCP.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereReweighting.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereSoftness.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereSuperBox.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereTP.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereTPHCP.SimOverlapParam
    • etomica.normalmode.SimOverlapSoftSphereTPSlantedBox.SimOverlapParam
    • etomica.normalmode.SimOverlapSSnxy.SimOverlapParam
    • etomica.normalmode.SimTargetUmbrella.SimBennetParam
    • etomica.normalmode.SimUmbrella.SimBennetParam
    • etomica.normalmode.SimUmbrellaSoftSphere.SimBennetParam
    • etomica.virial.simulations.SingleAssociationSiteFluid.VirialAssociatingFluidParam
    • etomica.virial.simulations.SingleAssociationSiteFluid2.VirialAssociatingFluidParam
    • etomica.virial.simulations.SingleAssociationSiteFluid2Pt.VirialAssociatingFluidParam
    • etomica.virial.simulations.SingleAssociationSiteFluid3Pt.VirialAssociatingFluidParam
    • etomica.virial.simulations.SingleAssociationSiteFluid4Points.VirialAssociatingFluidParam
    • etomica.virial.simulations.SingleAssociationSiteFluid4Pt.VirialAssociatingFluidParam
    • etomica.virial.simulations.SingleAssociationSiteFluidGraph.VirialAssociatingFluidParam
    • etomica.starpolymer.StarPolymerMC.PolymerParam
    • etomica.starpolymer.StarPolymerMD.PolymerParam
    • etomica.modules.statistics.StatisticsMCGraphic.StatsParams
    • etomica.association.AceticAcid.TestAceticAcidMC3D_NPT.AceticAcidMCParam
    • etomica.tests.TestHSMD3D.SimParams
    • etomica.association.TestIGAssociationMC3D_NPT_DoubleSites.VirialAssociatingFluidParam
    • etomica.association.TestLJAssociationMC3D_NPT_DoubleSites.VirialAssociatingFluidParam
    • etomica.association.TestLJAssociationMC3D_NPT.VirialAssociatingFluidParam
    • etomica.virial.simulations.TestLJAssociationMC3D_NPT.VirialAssociatingFluidParam
    • etomica.association.TestLJAssociationMC3D_NVTOld.VirialAssociatingFluidParam
    • etomica.tests.TestLJGCMC3D.SimParams
    • etomica.tests.TestLJMC3D.SimParams
    • etomica.tests.TestLJMD3D.SimParams
    • etomica.tests.TestSWChain.SimParams
    • etomica.dielectric.TIP4P_NVT.Param
    • etomica.virial.simulations.Virial2CLJmuQ.Virial2CLJQParam
    • etomica.virial.simulations.Virial2CLJQ.Virial2CLJQParam
    • etomica.virial.simulations.Virial7SiteRigidSF6.VirialSF6Param
    • etomica.virial.simulations.VirialAceticAcid.VirialParam
    • etomica.virial.simulations.VirialAceticAcidFlex.VirialParam
    • etomica.virial.simulations.VirialAlkane.VirialSiepmannSpheresParam
    • etomica.virial.simulations.VirialAlkaneEHTest.VirialParam
    • etomica.virial.simulations.VirialAlkaneFlex.VirialSiepmannSpheresParam
    • etomica.virial.simulations.VirialAlkaneFull.VirialSiepmannSpheresParam
    • etomica.virial.simulations.VirialAlkaneMix_Kong.VirialAlkaneMixParam
    • etomica.virial.simulations.VirialAlkaneMix.VirialAlkaneMixParam
    • etomica.virial.simulations.VirialAlkaneMix2_Kong.VirialAlkaneMixParam
    • etomica.virial.simulations.VirialAlkaneMix2.VirialAlkaneMixParam
    • etomica.virial.simulations.VirialAlkaneSKS.VirialSiepmannSpheresParam
    • etomica.virial.simulations.VirialAnthracene464.VirialAnthracene545Param
    • etomica.virial.simulations.VirialAnthracene545.VirialAnthracene545Param
    • etomica.virial.simulations.VirialAnthraceneTraPPE.VirialAnthraceneTraPPEParam
    • etomica.virial.simulations.VirialAssociatingFluid.VirialAssociatingFluidParam
    • etomica.virial.simulations.VirialAssociatingFluid4points.VirialAssociatingFluidParam
    • etomica.virial.simulations.VirialB2WaterTIP4P_DHS_difference.VirialParam
    • etomica.virial.simulations.VirialB3C1HSDipole.VirialParam
    • etomica.virial.simulations.VirialB3C1TIP4Pwater.VirialParam
    • etomica.virial.simulations.VirialB3C2HSDipole.VirialParam
    • etomica.virial.simulations.VirialB3C2TIP4Pwater.VirialParam
    • etomica.virial.simulations.VirialCH4AlkaneEHMix.VirialMixParam
    • etomica.virial.simulations.VirialCO2.VirialCO2Param
    • etomica.virial.simulations.VirialCO2AlkaneEHMix.VirialMixParam
    • etomica.virial.simulations.VirialCO2AlkaneUAMix.VirialMixParam
    • etomica.virial.simulations.VirialCO2anthracene464.VirialCO2anthracene545Param
    • etomica.virial.simulations.VirialCO2anthracene545.VirialCO2anthracene545Param
    • etomica.virial.simulations.VirialCO2AnthraceneTraPPE.VirialCO2AnthraceneTraPPEParam
    • etomica.virial.simulations.VirialCO2CH4Mix.VirialMixParam
    • etomica.virial.simulations.VirialCO2CH4UAMix.VirialMixParam
    • etomica.virial.simulations.VirialCO2CH4UAMixWheatley.VirialMixParam
    • etomica.virial.simulations.VirialCO2H2OGCPM.VirialParam
    • etomica.virial.simulations.VirialCO2H2OGCPMX.VirialParam
    • etomica.virial.simulations.VirialCO2H2OSC.VirialCO2SCParam
    • etomica.virial.simulations.VirialCO2LJQ.VirialCO2LJQParam
    • etomica.virial.simulations.VirialCO2N2Mix.VirialMixParam
    • etomica.virial.simulations.VirialCO2NaphthaleneLJQ.VirialCO2NaphthaleneLJQParam
    • etomica.virial.simulations.VirialCO2NaphthaleneTraPPE.VirialCO2TraPPEParam
    • etomica.virial.simulations.VirialCO2PI.VirialH2PIParam
    • etomica.virial.simulations.VirialCO2SKSMix.VirialCO2Param
    • etomica.virial.simulations.VirialCO2TraPPE.VirialCO2TraPPEParam
    • etomica.virial.simulations.VirialCPSHeliumNonAdditive.VirialParam
    • etomica.virial.simulations.VirialCPSHeliumNonAdditiveClassical_Correction.VirialParam
    • etomica.virial.simulations.VirialCPSHeliumNonAdditiveClassical.VirialParam
    • etomica.virial.simulations.VirialEmulNonAdditive.VirialParam
    • etomica.virial.simulations.VirialExternalFieldConfinedOverlap.VirialExternalFieldParam
    • etomica.virial.simulations.VirialExternalFieldConfinedOverlapRho.VirialExternalFieldParam
    • etomica.virial.simulations.VirialExternalFieldConfinedOverlapSW.VirialExternalFieldParam
    • etomica.virial.simulations.VirialExternalFieldOverlapRho.VirialExternalFieldParam
    • etomica.virial.simulations.VirialGCPM.VirialGCPMParam
    • etomica.virial.simulations.VirialH2O.VirialH2OParam
    • etomica.virial.simulations.VirialH2OGCPMD.VirialParam
    • etomica.virial.simulations.VirialH2PI.VirialH2PIParam
    • etomica.virial.simulations.VirialH2PIBoltzmann.VirialHePIParam
    • etomica.virial.simulations.VirialH2PISimple.VirialH2PISimpleParam
    • etomica.virial.simulations.VirialH2PIXC.VirialHePIParam
    • etomica.virial.simulations.VirialH2PYCorrection.VirialH2PYCParam
    • etomica.virial.simulations.VirialHardAssociationCone.VirialLJParam
    • etomica.virial.simulations.VirialHardAssociationConeDoubleSites.VirialLJParam
    • etomica.virial.simulations.VirialHeD.VirialParam
    • etomica.virial.simulations.VirialHeNonAdditive.VirialParam
    • etomica.virial.simulations.VirialHeNonAdditiveD.VirialParam
    • etomica.virial.simulations.VirialHeNonAdditiveWheatley.VirialParam
    • etomica.virial.simulations.VirialHePCKLJS.VirialParam
    • etomica.virial.simulations.VirialHePCKLJSCHNCCorrection.VirialLJParam
    • etomica.virial.simulations.VirialHePCKLJSPYCorrection.VirialLJParam
    • etomica.virial.simulations.VirialHePCKLJSTempDeriv.VirialParam
    • etomica.virial.simulations.VirialHePI_PotentialCorrection.VirialHePIParam
    • etomica.virial.simulations.VirialHePI.VirialHePIParam
    • etomica.virial.simulations.VirialHePISysErr.VirialHePIParam
    • etomica.virial.simulations.VirialHePIXC.VirialHePIParam
    • etomica.virial.simulations.VirialHePIXCEven.VirialHePIParam
    • etomica.virial.simulations.VirialHePIXCOdd.VirialHePIParam
    • etomica.virial.simulations.VirialHePYCorrection.VirialHePYCParam
    • etomica.virial.simulations.VirialHeSC.VirialHePYCParam
    • etomica.virial.simulations.VirialHS.VirialHSParam
    • etomica.virial.simulations.VirialHSBinMultiThreaded.VirialHSBinParam
    • etomica.virial.simulations.VirialHSMixture.VirialHSParam
    • etomica.virial.simulations.VirialHSMixtureOverlap.VirialHSParam
    • etomica.virial.simulations.VirialHSOrC.VirialLJrParam
    • etomica.virial.simulations.VirialLJ.VirialLJParam
    • etomica.virial.simulations.VirialLJBridge.VirialLJParam
    • etomica.virial.simulations.VirialLJCHNCCorrection.VirialLJParam
    • etomica.virial.simulations.VirialLJD.VirialLJParam
    • etomica.virial.simulations.VirialLJDU.VirialLJParam
    • etomica.virial.simulations.VirialLJMultiOverlap.VirialMixParam
    • etomica.virial.simulations.VirialLJOrC.VirialLJrParam
    • etomica.virial.simulations.VirialLJOrICPYC.VirialLJrParam
    • etomica.virial.simulations.VirialLJPT.VirialLJParam
    • etomica.virial.simulations.VirialLJPYCorrection.VirialLJParam
    • etomica.virial.simulations.VirialLJSeries.VirialLJParam
    • etomica.virial.simulations.VirialMethaneEH.VirialMethaneParam
    • etomica.virial.simulations.VirialN2.VirialN2Param
    • etomica.virial.simulations.VirialN2AlkaneEHMix.VirialMixParam
    • etomica.virial.simulations.VirialN2AlkaneUAMix.VirialMixParam
    • etomica.virial.simulations.VirialN2AlkaneUARigid.VirialMixParam
    • etomica.virial.simulations.VirialN2CH4Mix.VirialMixParam
    • etomica.virial.simulations.VirialN2CH4UAMix.VirialMixParam
    • etomica.virial.simulations.VirialN2PI.VirialN2Param
    • etomica.virial.simulations.VirialN2TraPPE.VirialN2Param
    • etomica.virial.simulations.VirialNaphthaleneTraPPE.VirialNaphthaleneTraPPEParam
    • etomica.virial.simulations.VirialO2.VirialO2Param
    • etomica.virial.simulations.VirialO2PI.VirialO2Param
    • etomica.math.numerical.VirialOptimizer.VirialParam
    • etomica.virial.simulations.VirialPh464.VirialPh3site464Param
    • etomica.virial.simulations.VirialPh545.VirialPh3site545Param
    • etomica.virial.simulations.VirialPhenanthreneTraPPE.VirialPhenanthreneTraPPEParam
    • etomica.virial.simulations.VirialPolyhedra.VirialHSParam
    • etomica.virial.simulations.VirialPolyhedra2.VirialHSParam
    • etomica.starpolymer.VirialPolymerOverlapMC.VirialHSParam
    • etomica.starpolymer.VirialPolymerOverlapWithMD.VirialHSParam
    • etomica.starpolymer.VirialPolymerOverlapWithMDB3.VirialHSParam
    • etomica.virial.simulations.VirialRowleyAlcohol.VirialParam
    • etomica.virial.simulations.VirialSF6LJAlkaneUAMix.VirialMixParam
    • etomica.virial.simulations.VirialSQWBinMultiRecalcW.VirialHSParam
    • etomica.virial.simulations.VirialSQWBinMultiThreaded.VirialHSBinParam
    • etomica.virial.simulations.VirialSQWRecalcSmallMem.VirialHSParam
    • etomica.virial.simulations.VirialSW.VirialSWParam
    • etomica.virial.simulations.VirialSwsPT.VirialSiepmannSpheresParam
    • etomica.virial.simulations.VirialSWWE.VirialSWWEParam
    • etomica.virial.simulations.VirialTraPPE.VirialParam
    • etomica.virial.simulations.VirialTraPPEAlcohol.VirialParam
    • etomica.heVLE.VLESim.GEMCParams
      • etomica.heVLE.VLE.VLEParams
    • etomica.association.AceticAcid.Wertheim2SiteAceticAcid.WertheimParam
    • etomica.association.GCPMWater.WertheimGCPM3PtEBondDecomp.VirialAssociatingFluidParam
    • etomica.association.GCPMWater.WertheimGCPM3PtThreeSite.VirialAssociatingFluidParam
    • etomica.association.GCPMWater.WertheimGCPM4PtEBondDecomp.WertheimAssociatingFluidParam
    • etomica.association.GCPMWater.WertheimGCPM4PtEBondDecompFinal.VirialAssociatingFluidParam
    • etomica.association.GCPMWater.WertheimGCPM4PtThreeSite.VirialAssociatingFluidParam
    • etomica.association.GCPMWater.WertheimGCPM4PtThreeSiteEDecompDirectSampling.VirialAssociatingFluidParam
  • etomica.parser.ParmedParser
  • etomica.parser.ParmedStructure
  • etomica.util.ParseArgs
  • org.jmol.util.Parser
  • etomica.graph.engine.impl.ParserImpl (implements etomica.graph.engine.Parser)
  • etomica.parser.ParserLAMMPS
  • etomica.parser.ParserLAMMPS.Options
  • etomica.parser.ParserLAMMPS.Stuff
  • etomica.veos.bigdecimal.PartitionsP
  • etomica.graph.operations.PCopy (implements etomica.graph.operations.Unary)
  • etomica.action.PDBWriter (implements etomica.action.IAction)
  • etomica.virial.PercusYevick
  • etomica.virial.PercusYevick1QC
  • etomica.math.discrete.PermutationDegenerateIterator (implements etomica.lattice.IndexIterator, java.io.Serializable)
  • etomica.math.discrete.PermutationIterator (implements etomica.lattice.IndexIterator, java.io.Serializable)
  • etomica.virial.cluster.PermutationIterator
  • etomica.modules.pistoncylinder.PistonCylinderGraphic.ModifierAtomDiameter (implements etomica.modifier.Modifier)
  • etomica.modules.pistoncylinder.PistonCylinderGraphic.ModifierPistonDensity (implements etomica.modifier.Modifier)
  • etomica.math.geometry.Plane (implements java.io.Serializable)
    • etomica.modules.pistoncylinder.PistonPlane
    • etomica.modules.sam.WallPlane
  • org.jmol.awt.Platform (implements org.jmol.api.ApiPlatform)
  • etomica.models.co2.PNCO2GCPM.P3GCPMAxilrodTeller (implements etomica.potential.IPotentialMolecular)
  • etomica.models.co2.PNGCPM.GCPMAgent
  • etomica.models.co2.PNGCPM.P3GCPMAxilrodTeller (implements etomica.potential.IPotentialMolecular)
  • etomica.models.co2.PNGCPM.PNGCPMCached (implements etomica.potential.IPotentialMolecular)
  • etomica.models.water.PNWaterGCPM.PNWaterGCPMCached (implements etomica.potential.IPotentialMolecular)
  • etomica.math.numerical.PolynomialFit
  • etomica.math.numerical.PolynomialFit.FitResult
  • etomica.math.geometry.Polytope (implements java.io.Serializable, etomica.math.geometry.Shape)
    • etomica.math.geometry.LineSegment (implements etomica.math.geometry.Rectangular)
    • etomica.math.geometry.Point
    • etomica.math.geometry.Polygon
      • etomica.math.geometry.Parallelogram (implements etomica.math.geometry.Parallelotope)
      • etomica.math.geometry.PolygonGeneral
      • etomica.math.geometry.Rectangle (implements etomica.math.geometry.Rectangular)
      • etomica.math.geometry.Square
    • etomica.math.geometry.Polyhedron
      • etomica.math.geometry.Hexahedron
        • etomica.math.geometry.Cube
        • etomica.math.geometry.Cuboid (implements etomica.math.geometry.Rectangular)
        • etomica.math.geometry.Parallelepiped (implements etomica.math.geometry.Parallelotope)
      • etomica.math.geometry.PolyhedronGeneral
      • etomica.math.geometry.TruncatedOctahedron
  • etomica.potential.Potential (implements etomica.potential.IPotentialAtomic)
    • etomica.potential.P3BondAngle (implements etomica.potential.PotentialSoft)
    • etomica.potential.P3BondAngleDreiding (implements etomica.potential.PotentialSoft)
    • etomica.potential.P3CPSNonAdditiveHe (implements etomica.potential.IPotentialAtomicMultibody, etomica.potential.PotentialSoft)
    • etomica.potential.P3CPSNonAdditiveHeLessSimplified (implements etomica.potential.IPotentialAtomicMultibody, etomica.potential.PotentialSoft)
    • etomica.potential.P3CPSNonAdditiveHeOrig (implements etomica.potential.PotentialSoft)
    • etomica.potential.P3CPSNonAdditiveHeSimplified (implements etomica.potential.IPotentialAtomicMultibody, etomica.potential.PotentialSoft)
    • etomica.potential.P4BondTorsion (implements etomica.potential.PotentialSoft)
      • etomica.potential.P4BondTorsionOPLS
    • etomica.potential.P4BondTorsionAlkaneXCCH (implements etomica.potential.PotentialSoft)
    • etomica.potential.P4TorsionDreiding (implements etomica.potential.PotentialSoft)
    • etomica.potential.Potential0
      • etomica.potential.Potential0Lrc (implements etomica.potential.IPotential0Lrc, etomica.potential.PotentialSoft)
        • etomica.potential.P2SoftSphericalTruncated.P0Lrc (implements etomica.potential.Potential2Soft)
    • etomica.potential.Potential1
      • etomica.normalmode.P1Constraint
      • etomica.potential.P1HardMovingBoundary (implements etomica.graphics.Drawable, etomica.potential.PotentialHard)
      • etomica.potential.P1HardPeriodic (implements etomica.potential.PotentialHard)
      • etomica.modules.osmosis.P1HardWall (implements etomica.potential.PotentialHard)
      • etomica.potential.P1Harmonic (implements etomica.potential.PotentialSoft)
      • etomica.potential.P1HarmonicSite (implements etomica.potential.PotentialSoft)
      • etomica.freeenergy.npath.P1ImageHarmonic (implements etomica.potential.PotentialSoft)
      • etomica.dimer.P1LepsHarmonic (implements etomica.potential.PotentialSoft)
      • etomica.modules.mu.P1MagicWall (implements etomica.potential.PotentialHard)
      • etomica.spin.ising.P1MagneticField
      • etomica.potential.P1SoftBoundary (implements etomica.potential.PotentialSoft)
      • etomica.modules.rosmosis.P1Tether (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.potential.PotentialSoft)
      • etomica.interfacial.P1Wall (implements etomica.potential.PotentialSoft)
      • etomica.modules.dcvgcmd.P1WCAPorousWall (implements etomica.potential.PotentialSoft)
      • etomica.dcvgcmd.P1WCAWall (implements etomica.potential.PotentialSoft)
      • etomica.modules.dcvgcmd.P1WCAWall (implements etomica.potential.PotentialSoft)
      • etomica.modules.sam.P1WCAWall (implements etomica.potential.PotentialSoft)
    • etomica.potential.Potential2
      • etomica.eam.P2EAM (implements etomica.potential.PotentialSoft)
      • etomica.potential.P2HardAssociationCone
      • etomica.potential.P2HardAssociationConeDoubleSites (implements etomica.potential.Potential2Soft)
      • etomica.potential.P2HardAssociationConeFourSites (implements etomica.potential.Potential2Soft)
      • etomica.potential.P2HardAssociationConeFourSitesSW
      • etomica.potential.P2HardAssociationConeOneSite (implements etomica.potential.Potential2Soft)
      • etomica.potential.P2HardAssociationConeReference
      • etomica.potential.P2HardAssociationConeReferenceFourSites
      • etomica.potential.P2HardAssociationConeSW
      • etomica.potential.P2HardBondedList (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.potential.PotentialHard)
      • etomica.polydisperseHS.P2HardSpherePoly (implements etomica.potential.PotentialHard)
      • etomica.potential.P2Ideal (implements etomica.potential.Potential2Soft, etomica.potential.Potential2Spherical, etomica.potential.PotentialHard)
      • etomica.potential.P2LJQ (implements etomica.potential.Potential2Soft)
      • etomica.potential.P2SoftSphericalTruncatedSwitched (implements etomica.potential.PotentialSoft)
      • etomica.potential.P2SoftTruncated (implements etomica.potential.Potential2Soft, etomica.potential.PotentialTruncated)
      • etomica.potential.P2SpheroPolyhedron
      • etomica.spin.heisenberg.P2Spin (implements etomica.potential.IPotentialAtomicSecondDerivative, etomica.potential.IPotentialTorque)
      • etomica.spin.ising.P2Spin
      • etomica.modules.catalysis.P2SquareWellBonding (implements etomica.potential.IPotentialAtomic, etomica.potential.PotentialHard)
      • etomica.potential.P2TriangleWell
      • etomica.normalmode.P2XOrder (implements etomica.potential.Potential2Spherical, etomica.potential.PotentialHard)
      • etomica.potential.Potential2HardSpherical (implements etomica.potential.Potential2Spherical, etomica.potential.PotentialHard)
        • etomica.potential.P2DoubleWell
        • etomica.potential.P2HardAssociation
        • etomica.potential.P2HardBond
        • etomica.potential.P2HardSphere
          • etomica.cavity.P2HardSphereCavity
          • etomica.modules.colloid.P2HardSphereMC
          • etomica.potential.P2RoughSphere
        • etomica.potential.P2PenetrableBond
        • etomica.potential.P2PenetrableSphere
        • etomica.potential.P2PenetrableSquareWell
        • etomica.potential.P2SquareWell
          • etomica.modules.chainequilibrium.P2SquareWellBonded
          • etomica.modules.reactionequilibrium.P2SquareWellBonded
          • etomica.modules.colloid.P2SquareWellMonomer
          • etomica.modules.chainequilibrium.P2SquareWellRadical
        • etomica.modules.catalysis.P2SquareWellBondingCO
        • etomica.modules.mu.P2SquareWellOneSide
        • etomica.potential.P2SquareWellRobust (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
        • etomica.modules.catalysis.P2SquareWellSurface
        • etomica.potential.P2Tether
      • etomica.potential.Potential2SoftSpherical (implements etomica.potential.Potential2Soft)
        • etomica.potential.P2Anharmonic
        • etomica.potential.P2ArgonAziz1993
        • etomica.potential.P2ArgonSlavicekEtAl2003
        • etomica.potential.P2ArgonTangAndToennies2003
        • etomica.modules.droplet.P2Cohesion (implements etomica.potential.IPotentialAtomic)
        • etomica.potential.P2DiscreteFeynmanHibbs.P2HeEmpericalQuantum
        • etomica.potential.P2Dreiding
        • etomica.potential.P2Electrostatic
        • etomica.potential.P2ElectrostaticWithHardCore
        • etomica.potential.P2Exp6
        • etomica.potential.P2Exp6Buckingham
        • etomica.potential.P2Fene
        • etomica.potential.P2Harmonic
        • etomica.potential.P2HC2Yukawa
        • etomica.potential.P2HePCJS
        • etomica.potential.P2HePCKLJS
        • etomica.potential.P2HeSimplified
        • etomica.potential.P2HydrogenPatkowskiIso
        • etomica.potential.P2LennardJones
        • etomica.potential.P2LennardJonesDreiding
        • etomica.potential.P2LJQQ
        • etomica.potential.P2ModifiedMorse
        • etomica.potential.P2Morse
        • etomica.potential.P2QChemInterpolated
        • etomica.models.rowley.P2RepRowley
        • etomica.potential.P2SoftSphere
        • etomica.potential.P2SoftSphericalTruncated (implements etomica.potential.PotentialTruncated)
          • etomica.potential.P2SoftSphericalTruncatedShifted
            • etomica.potential.P2SoftSphericalTruncatedForceShifted
        • etomica.potential.P2WCA
        • etomica.potential.P2Yukawa
      • etomica.potential.Potential2SoftSphericalLS (implements etomica.potential.PotentialSoft)
      • etomica.liquidLJ.Potential2SoftSphericalLSMulti (implements etomica.potential.PotentialSoft)
      • etomica.liquidLJ.Potential2SoftSphericalLSMultiLat (implements etomica.potential.PotentialSoft)
        • etomica.liquidLJ.Potential2SoftSphericalLSMultiLatSlanty
      • etomica.osmoticvirial.PotentialDepletion (implements etomica.potential.Potential2Spherical)
    • etomica.potential.PotentialN
      • etomica.eam.PotentialCuLREP (implements etomica.potential.PotentialSoft)
      • etomica.eam.PotentialEAM (implements etomica.potential.PotentialSoft)
      • etomica.eam.PotentialEAM_LS (implements etomica.potential.PotentialSoft)
      • etomica.eam.PotentialEFS (implements etomica.potential.PotentialSoft)
  • etomica.liquidLJ.Potential2SoftSphericalLSMultiLat.ReturnValue
  • etomica.potential.PotentialArray (implements java.io.Serializable)
  • etomica.potential.PotentialArrayByType (implements java.io.Serializable)
  • etomica.potential.PotentialArrayMolecular (implements java.io.Serializable)
  • etomica.potential.PotentialAtomicSum (implements etomica.potential.IPotentialAtomic)
  • etomica.freeenergy.npath.PotentialCalculationDUDW (implements etomica.potential.PotentialCalculation)
  • etomica.normalmode.PotentialCalculationEFSSP (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationEnergySum (implements etomica.potential.PotentialCalculation, etomica.potential.PotentialCalculationMolecular, java.io.Serializable)
    • etomica.freeenergy.npath.DataSourceEnergies.PotentialCalculationEnergies
      • etomica.freeenergy.npath.DataSourceEnergies.PotentialCalculationEnergiesEAM
    • etomica.potential.PotentialCalculationEnergySumBigDecimal
    • etomica.eam.PotentialCalculationEnergySumEAM
  • etomica.liquidLJ.PotentialCalculationEnergySumCutoff (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationForceSum (implements etomica.potential.PotentialCalculation)
    • etomica.potential.PotentialCalculationForcePressureSum
      • etomica.modules.materialfracture.PotentialCalculationForceStress
      • etomica.modules.glass.PotentialCalculationForceSumGlass (implements etomica.modules.glass.AtomStressSource)
    • etomica.dimer.PotentialCalculationForcePressureSumGB
    • etomica.modules.sam.PotentialCalculationForceSumWall
    • etomica.modules.rosmosis.PotentialCalculationForceSumWallForce (implements etomica.modules.rosmosis.IPotentialCalculationWallForce)
  • etomica.spin.heisenberg.PotentialCalculationFreeEnergy (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationFSum (implements etomica.potential.PotentialCalculationMolecular)
  • etomica.spin.heisenberg.PotentialCalculationFSum (implements etomica.potential.PotentialCalculationMolecular)
  • etomica.spin.heisenberg.PotentialCalculationHeisenberg (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationHyperVirialSum (implements etomica.potential.PotentialCalculation)
  • etomica.normalmode.PotentialCalculationLJSP (implements etomica.potential.PotentialCalculation)
  • etomica.mappedvirial.PotentialCalculationMappedEnergy (implements etomica.potential.PotentialCalculation)
  • etomica.mappedRdf.PotentialCalculationMappedRdf (implements etomica.potential.PotentialCalculation)
  • etomica.mappedvirial.PotentialCalculationMappedVirial (implements etomica.potential.PotentialCalculation)
  • etomica.mappedvirial.PotentialCalculationMappedVirialV (implements etomica.potential.PotentialCalculation)
  • etomica.mappedvirial.PotentialCalculationMappedVirialV.UShift (implements etomica.mappedvirial.PotentialCalculationMappedVirialV.VFunc)
  • etomica.mappedvirial.PotentialCalculationMappedVirialV.USine (implements etomica.mappedvirial.PotentialCalculationMappedVirialV.VFunc)
  • etomica.spin.heisenberg.PotentialCalculationMeanField (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>, etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationMolecularVirialSum (implements etomica.potential.PotentialCalculationMolecular)
  • etomica.spin.heisenberg.PotentialCalculationMoleculeAgentSum (implements etomica.potential.PotentialCalculation)
  • etomica.spin.heisenberg.PotentialCalculationMoleculeAgentSumMinusIdeal (implements etomica.potential.PotentialCalculation)
  • etomica.spin.heisenberg.PotentialCalculationMoleculeAgentSumMinusIdealPair (implements etomica.potential.PotentialCalculation)
  • etomica.spin.heisenberg.PotentialCalculationMoleculeAgentSumPair (implements etomica.potential.PotentialCalculation)
  • etomica.spin.heisenberg.PotentialCalculationPair (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationPhiSum (implements etomica.potential.PotentialCalculationMolecular)
  • etomica.spin.heisenberg.PotentialCalculationPhiSum (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationPhiSumHeisenberg (implements etomica.potential.PotentialCalculationMolecular)
  • etomica.potential.PotentialCalculationPressureTensor (implements etomica.potential.PotentialCalculation)
  • etomica.data.meter.PotentialCalculationRDF (implements etomica.potential.PotentialCalculation)
  • etomica.normalmode.PotentialCalculationSolidSuper (implements etomica.potential.PotentialCalculation)
  • etomica.normalmode.PotentialCalculationSolidSuperCut (implements etomica.potential.PotentialCalculation)
    • etomica.normalmode.PotentialCalculationSolidSuperCutLS
  • etomica.liquidLJ.PotentialCalculationSumCutoff (implements etomica.potential.PotentialCalculation)
  • etomica.liquidLJ.PotentialCalculationSumCutoffLS (implements etomica.potential.PotentialCalculation)
  • etomica.spin.heisenberg.PotentialCalculationSumquare (implements etomica.potential.PotentialCalculation)
  • etomica.potential.PotentialCalculationTorqueSum (implements etomica.potential.PotentialCalculationMolecular)
    • etomica.modules.rosmosis.PotentialCalculationTorqueSumWallForce (implements etomica.modules.rosmosis.IPotentialCalculationWallForce)
  • etomica.potential.PotentialCalculationVirialSum (implements etomica.potential.PotentialCalculation)
  • etomica.spin.heisenberg.PotentialCalculationVSum (implements etomica.potential.PotentialCalculation)
  • etomica.virial.PotentialCommonAtomic (implements etomica.potential.IPotentialAtomic)
  • etomica.potential.PotentialGroup.PotentialLinker (implements java.io.Serializable)
  • etomica.virial.PotentialGroup3PI.PotentialGroup3PISkip (implements etomica.potential.IPotentialMolecular)
  • etomica.virial.PotentialGroupPI.PotentialGroupPISkip (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.PotentialMaster
    • etomica.potential.PotentialMasterMonatomic (implements etomica.atom.AtomTypeAgentManager.AgentSource<E>)
    • etomica.nbr.PotentialMasterNbr
      • etomica.nbr.cell.PotentialMasterCell
        • etomica.nbr.cell.PotentialMasterCellMixed
      • etomica.nbr.PotentialMasterHybrid
      • etomica.nbr.list.PotentialMasterList
      • etomica.nbr.site.PotentialMasterSite
    • etomica.nbr.molecule.PotentialMasterNbrMolecular
      • etomica.nbr.list.molecule.PotentialMasterListMolecular
  • etomica.potential.PotentialMaster.AtomIterator0 (implements etomica.atom.iterator.AtomsetIteratorBasisDependent)
  • etomica.potential.PotentialMaster.MoleculeIterator0 (implements etomica.molecule.iterator.MoleculesetIteratorPDT)
  • etomica.potential.PotentialMaster.PotentialLinker
  • etomica.nbr.list.molecule.PotentialMasterListMolecular.NeighborListAgentSourceMolecular (implements etomica.box.BoxAgentManager.BoxAgentSource<E>)
    • etomica.nbr.list.molecule.NeighborListManagerSlantyMolecular.NeighborListSlantyAgentSourceMolecular
  • etomica.potential.PotentialMasterLrc
  • etomica.potential.PotentialMolecular (implements etomica.potential.IPotentialMolecular)
    • etomica.models.nitrogen.P0LatticeEnergyCorrec
    • etomica.potential.P1ExternalField
    • etomica.potential.P22CLJmuQ (implements etomica.potential.PotentialMolecularSoft)
    • etomica.potential.P22CLJQ
    • etomica.potential.P2CO2EMP
      • etomica.potential.P2CO2EMP1
      • etomica.potential.P2CO2EMP2
      • etomica.potential.P2CO2TraPPE
    • etomica.potential.P2DLPOLY
    • etomica.potential.P2HSDipole (implements etomica.potential.IPotentialMolecularSecondDerivative)
    • etomica.starpolymer.P2HSPolymer
    • etomica.potential.P2LJDipole (implements etomica.potential.IPotentialMolecularSecondDerivative)
    • etomica.rotation.P2LJDipole (implements etomica.potential.IPotentialMolecularTorque)
    • etomica.potential.P2MoleculeSoftTruncatedSwitched (implements etomica.potential.IPotentialMolecularTorque)
    • etomica.potential.P2MoleculeTruncated
    • etomica.models.nitrogen.P2Nitrogen (implements etomica.potential.IPotentialMolecularTorque)
    • etomica.models.nitrogen.P2NitrogenAB (implements etomica.potential.PotentialMolecularSoft)
    • etomica.models.nitrogen.P2NitrogenAnisotropic
    • etomica.models.nitrogen.P2NitrogenShellModel (implements etomica.potential.PotentialMolecularSoft)
    • etomica.potential.P2QChem
    • etomica.potential.P2ReactionFieldDipole (implements etomica.potential.IPotentialMolecularSecondDerivative, etomica.potential.PotentialMolecularSoft)
    • etomica.potential.P2ReactionFieldDipoleTruncated (implements etomica.potential.IPotentialMolecularTorque, etomica.potential.PotentialMolecularSoft)
    • etomica.potential.P2ReactionFieldDipoleTruncated.P0ReactionField (implements etomica.potential.IPotential0Lrc, etomica.potential.PotentialMolecularSoft)
    • etomica.models.water.P2Water3P
      • etomica.models.water.P2Water3PSoft (implements etomica.potential.IPotentialMolecularTorque)
        • etomica.models.water.P2WaterSPCSoft
      • etomica.models.water.P2WaterSPC
      • etomica.models.water.P2WaterSPCE
    • etomica.models.water.P2Water4P
      • etomica.models.water.P2Water4PSoft (implements etomica.potential.IPotentialMolecularSecondDerivative)
        • etomica.models.water.P2WaterTIP4PSoft
      • etomica.models.water.P2WaterTIP4P
    • etomica.models.water.P2WaterTIP4PHardCore
    • etomica.models.co2.PNCO2GCPM (implements etomica.potential.PotentialPolarizable)
    • etomica.models.co2.PNGCPM (implements etomica.potential.PotentialPolarizable)
      • etomica.models.co2.PNGCPMX
    • etomica.models.water.PNWaterGCPM (implements etomica.potential.PotentialPolarizable)
      • etomica.models.water.P2HardAssociationGCPMReference
      • etomica.models.water.PNWaterGCPMThreeSite
    • etomica.models.water.PNWaterGCPMReactionField (implements etomica.potential.PotentialPolarizable)
    • etomica.potential.PotentialDLPOLY
    • etomica.potential.PotentialEmul
      • etomica.virial.PotentialEmulCached
    • etomica.potential.PotentialGroup
      • etomica.models.OPLS.P2AceticAcidTwoSite
      • etomica.models.OPLS.P2HardAssociationRefAceticAcidTwoSite
      • etomica.virial.PotentialGroup3PI
      • etomica.nbr.PotentialGroupNbr
        • etomica.nbr.PotentialGroupHybrid
      • etomica.virial.PotentialGroupPI
      • etomica.potential.PotentialGroupSoft (implements etomica.potential.PotentialMolecularSoft)
    • etomica.potential.PotentialMolecularMonatomic
    • etomica.potential.PotentialNonAdditiveDifference
    • etomica.models.nitrogen.PRotConstraint
    • etomica.virial.simulations.VirialB2WaterTIP4P_DHS_difference.P2WaterDHS
  • etomica.potential.PotentialMolecularSum (implements etomica.potential.IPotentialMolecular)
  • etomica.virial.PotentialNonAdditive (implements etomica.potential.IPotentialMolecular)
  • etomica.virial.PotentialNonAdditive.PotentialNonAdditiveNB (implements etomica.potential.IPotentialMolecular)
  • etomica.potential.PotentialReactive.BondChangeData (implements java.io.Serializable)
  • etomica.graph.operations.Pow (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.PowParameters (implements etomica.graph.operations.Parameters)
  • etomica.units.PrefixedUnit (implements etomica.units.Unit)
  • etomica.veos.bigdecimal.Prime
  • etomica.lattice.crystal.Primitive (implements java.io.Serializable)
    • etomica.lattice.crystal.PrimitiveBcc
    • etomica.lattice.crystal.PrimitiveCubic
    • etomica.lattice.crystal.PrimitiveFcc
    • etomica.lattice.crystal.PrimitiveGeneral
    • etomica.lattice.crystal.PrimitiveHexagonal
      • etomica.lattice.crystal.PrimitiveHexagonal.PrimitiveHexagonalReciprocal
    • etomica.lattice.crystal.PrimitiveHexagonal2D
      • etomica.lattice.crystal.PrimitiveHexagonal2D.PrimitiveHexagonal2DReciprocal
    • etomica.lattice.crystal.PrimitiveMonoclinic
      • etomica.lattice.crystal.PrimitiveMonoclinic.PrimitiveMonoclinicReciprocal
    • etomica.lattice.crystal.PrimitiveOrthorhombic
      • etomica.lattice.crystal.PrimitiveHCP4
    • etomica.lattice.crystal.PrimitiveOrthorhombicHexagonal
    • etomica.lattice.crystal.PrimitiveTetragonal
    • etomica.lattice.crystal.PrimitiveTriclinic
    • etomica.lattice.crystal.PrimitiveTrigonal
  • etomica.server.resources.PropertiesResource
  • java.beans.PropertyEditorSupport (implements java.beans.PropertyEditor)
    • etomica.graphics.DimensionedDoubleEditor (implements java.awt.event.ItemListener, javax.swing.JComboBox.KeySelectionManager, java.io.Serializable)
  • etomica.graph.engine.impl.PropertyImpl (implements etomica.graph.engine.Parser.Property)
  • etomica.server.representations.PropertyUpdate
  • etomica.virial.PYGenerator.IteratorEF (implements etomica.graph.model.GraphIterator)
  • etomica.veos.QSeries
  • org.jmol.util.Quadric
  • etomica.math.Quaternion
  • org.jmol.util.Quaternion
  • etomica.util.random.RandomMersenneTwister (implements etomica.util.random.IRandom)
  • etomica.util.random.RandomNumberGenerator (implements etomica.util.random.IRandom)
  • etomica.util.random.RandomNumberGeneratorUnix (implements etomica.util.random.IRandom)
  • etomica.box.RandomPositionSourceDeformable (implements etomica.box.RandomPositionSource)
  • etomica.box.RandomPositionSourceRectangular (implements etomica.box.RandomPositionSource)
  • etomica.graph.iterators.RangePermutator (implements etomica.graph.model.Permutator)
  • etomica.math.Rational
  • etomica.veos.bigdecimal.Rational (implements java.lang.Cloneable, java.lang.Comparable<T>)
  • etomica.modules.catalysis.ReactionManagerCO (implements etomica.integrator.IntegratorListener)
  • etomica.modules.glass.ReadCluster
  • etomica.eigenstuff.ReaderIn
  • etomica.util.ReadParameters (implements java.io.Serializable)
  • etomica.lattice.RectangularLattice (implements etomica.lattice.FiniteLattice<T>)
    • etomica.lattice.CellLattice
  • etomica.lattice.RectangularLattice.Iterator (implements java.io.Serializable, etomica.lattice.SiteIterator)
  • etomica.lattice.RectangularLatticeNbrIterator (implements java.io.Serializable, etomica.lattice.SiteIterator)
    • etomica.lattice.RectangularLatticeNbrIteratorAdjacent
    • etomica.lattice.RectangularLatticeNbrIteratorSquare
      • etomica.lattice.CellLattice.NeighborIterator
  • etomica.graph.operations.ReeHoover (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.ReeHoover.ReeHooverParameters (implements etomica.graph.operations.Parameters)
  • etomica.virial.simulations.ReeHooverMC
  • etomica.graph.operations.Relabel (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.RelabelParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.operations.RelabelWertheim (implements etomica.graph.operations.Unary)
  • etomica.compatibility.Requirement (implements java.io.Serializable)
    • etomica.compatibility.ClassRequirement (implements java.io.Serializable)
    • etomica.compatibility.FeatureRequirement (implements java.io.Serializable)
    • etomica.compatibility.RequirementSet (implements java.io.Serializable)
  • etomica.util.Resources
  • etomica.modules.rosmosis.ReverseOsmosisGraphic.ModifierAtomDiameter (implements etomica.modifier.Modifier)
  • etomica.modules.rosmosis.ReverseOsmosisGraphic.ModifierEpsilon (implements etomica.modifier.Modifier)
  • etomica.modules.rosmosis.ReverseOsmosisWaterGraphic.ModifierAtomDiameter (implements etomica.modifier.Modifier)
  • etomica.modules.rosmosis.ReverseOsmosisWaterGraphic.ModifierEpsilon (implements etomica.modifier.Modifier)
  • etomica.modules.rosmosis.ReverseOsmosisWaterGraphic.ModifierSoluteCharge (implements etomica.modifier.Modifier)
  • org.jmol.util.Rgb16
  • etomica.modules.sam.SamGraphic.ActionMoveWall (implements etomica.action.IAction)
  • etomica.modules.sam.SamGraphic.ModifierWallPosition (implements etomica.modifier.Modifier)
  • org.jmol.script.ScriptVariable.Sort (implements java.util.Comparator<T>)
  • etomica.graph.operations.SetPropertyFilter (implements etomica.graph.operations.Unary)
  • org.jmol.util.Shader
  • etomica.virial.simulations.ShapeParser
  • etomica.virial.simulations.ShapeParser.ShapeData
  • etomica.server.representations.SimClassInfo
  • etomica.normalmode.SimOverlapLJModule
  • etomica.normalmode.SimOverlapLJModule.APIPotentialReference (implements etomica.normalmode.IAPIPotential)
  • etomica.normalmode.SimOverlapLJModule.APIPotentialTarget (implements etomica.normalmode.IAPIPotential)
  • etomica.normalmode.SimOverlapModule
  • etomica.virial.GUI.components.SimpleElementForSimilarSpecies
  • etomica.units.SimpleUnit (implements etomica.units.Unit)
    • etomica.units.Ampere
    • etomica.units.Angstrom
    • etomica.units.Bar
    • etomica.units.Barye
    • etomica.units.BohrRadius
    • etomica.units.Calorie
    • etomica.units.Candela
    • etomica.units.Coulomb
    • etomica.units.Count
    • etomica.units.CubicCentimeter
    • etomica.units.CubicMeter
    • etomica.units.Dalton
    • etomica.units.Debye
    • etomica.units.Decimal
    • etomica.units.Degree
    • etomica.units.Dyne
    • etomica.units.Electron
    • etomica.units.ElectronVolt
    • etomica.units.Erg
    • etomica.units.Gram
    • etomica.units.Hartree
    • etomica.units.Hertz
    • etomica.units.Joule
    • etomica.units.Kelvin
    • etomica.units.Liter
    • etomica.units.Meter
    • etomica.units.Mole
    • etomica.units.Newton
    • etomica.units.Pascal
    • etomica.units.Percent
    • etomica.units.Picosecond
    • etomica.units.Pixel
    • etomica.units.Poise
    • etomica.units.Radian
    • etomica.units.Second
    • etomica.units.Statcoulomb
    • etomica.units.Volt
    • etomica.units.Watt
  • etomica.simulation.Simulation
    • etomica.modules.adsorption.Adsorption
    • etomica.osmoticvirial.AshtonWildingLJ
    • etomica.osmoticvirial.AshtonWildingOsmoticVirial
    • etomica.osmoticvirial.AshtonWildingVirial
    • etomica.modules.catalysis.Catalysis
    • etomica.AlkaneEH.CH4NVT
    • etomica.modules.chainequilibrium.ChainEquilibriumSim (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
    • etomica.simulation.prototypes.ChainHSMD3D
    • etomica.models.clathrates.ClathrateHarmonicFE
    • etomica.modules.colloid.ColloidSim
    • etomica.dcvgcmd.DCVGCMD
    • etomica.modules.dcvgcmd.DCVGCMD
    • etomica.AlkaneEH.DHS_NVT
    • etomica.dielectric.DHS_NVT
    • etomica.models.rowley.DimerApproach
    • etomica.rotation.DipoleBox
    • etomica.rotation.DipoleBoxMatrix
    • etomica.AlkaneEH.DLJ_NVT_1site
    • etomica.dielectric.DLJ_NVT_1site
    • etomica.modules.droplet.Droplet
    • etomica.modules.droplet.DropletAtomic
    • etomica.eam.EFSTungsten
    • etomica.models.nitrogen.FindBetaN2AngleFromParameter
    • etomica.modules.chainequilibrium.FreeRadicalPolymerizationSim (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
    • etomica.osmoticvirial.GCRestrictedGibbsHS
    • etomica.osmoticvirial.GCWidomInsertHS
    • etomica.simulation.prototypes.GEMCWithRotation
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModel
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelDecomposed
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelLatticeSum
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelPairMolecule
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelPairMoleculeSequential
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelPairMoleculeSequentialHalf2
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelPairMoleculeSequentialHalf2LS
    • etomica.models.nitrogen.HarmonicAlphaNitrogenModelPairMoleculeSequentialLS
    • etomica.models.nitrogen.HarmonicBetaNitrogenModel
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelDecomposed
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelLatticeSum
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelPairMoleculeSequential
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelPairMoleculeSequential5dofLS
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelPairMoleculeSequentialHalf2
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelPairMoleculeSequentialHalf2LS
    • etomica.models.nitrogen.HarmonicBetaNitrogenModelPairMoleculeSequentialLS
    • etomica.models.nitrogen.HarmonicDisorderedAlphaNitrogenModelPairMoleculeSequentialHalf2LS
    • etomica.models.nitrogen.HarmonicDisorderedAlphaNitrogenModelPairMoleculeSequentialLS
    • etomica.spin.heisenberg.Heisenberg
    • etomica.spin.heisenberg.Heisenberg3Pair
    • etomica.spin.heisenberg.HeisenbergPair
    • etomica.normalmode.HessianDB
    • etomica.normalmode.HSDimerNPT
    • etomica.simulation.prototypes.HSMC2D
    • etomica.simulation.prototypes.HSMD2D
    • etomica.simulation.prototypes.HSMD2D_noNbr
    • etomica.simulation.prototypes.HSMD3D
    • etomica.simulation.prototypes.HSMD3DNoNbr
    • etomica.cavity.HSMDCavity
    • etomica.cavity.HSMDWidom
    • etomica.normalmode.HSNPT
    • etomica.normalmode.nptdemo.HSNPT2DSim
    • etomica.normalmode.HTTPSoftSphereSim
    • etomica.modules.insertion.Insertion
    • etomica.modules.interfacial.InterfacialSW
    • etomica.spin.ising.Ising
    • etomica.interfacial.LJMC
    • etomica.modules.ensembles.LJMC
    • etomica.surfacetension.LJMC
    • etomica.liquidLJ.LjMC3D
    • etomica.simulation.prototypes.LJMC3D
    • etomica.simulation.prototypes.LJMC3DDimer
    • etomica.modules.ljmd.Ljmd
    • etomica.interfacial.LJMD
    • etomica.simulation.prototypes.LJMD2D
    • etomica.liquidLJ.LjMd3D
    • etomica.simulation.prototypes.LJMD3D
    • etomica.simulation.prototypes.LJMD3DNbr
    • etomica.metastable.LJmuVT
    • etomica.metastable.LJNPT
    • etomica.metastable.LJNVT
    • etomica.normalmode.LJVacancyMin
    • etomica.mappedvirial.MappedU
    • etomica.mappedvirial.MappedVirialLJ
    • etomica.mappedvirial.MappedVirialLJVGr
    • etomica.modules.materialfracture.MaterialFracture
    • etomica.models.nitrogen.MinimizationBetaNitrogenModel
    • etomica.models.nitrogen.MinimizationBetaNitrogenModelLS
    • etomica.models.clathrates.MinimizationTIP4P
    • etomica.models.nitrogen.MinimizeBetaNitrogenLatticeParameter
    • etomica.models.nitrogen.MinimizeBetaNitrogenLatticeParameterFromFile
    • etomica.models.nitrogen.MinimizeBetaNitrogenLatticeParameterLSFromFile
    • etomica.models.nitrogen.MinimizeBetaNitrogenTranslationDOF
    • etomica.models.nitrogen.MinimizeGammaNitrogenLatticeParameter
    • etomica.normalmode.MinimizeHCP
    • etomica.modules.mu.Mu
    • etomica.modules.multiharmonic.Multiharmonic
    • etomica.modules.multiharmonic.mbar.MultiharmonicMC
    • etomica.modules.multiharmonic.MultiharmonicMC
    • etomica.modules.multiharmonic.overlap.MultiharmonicMC
    • etomica.modules.multiharmonic.umbrella.MultiharmonicMC
    • etomica.normalmode.NormalModeAnalysisDisplay1D
    • etomica.normalmode.NormalModeAnalysisDisplay2D
    • etomica.normalmode.NormalModeAnalysisDisplay3D
    • etomica.osmoticvirial.NVTWidomInsertLJ
    • etomica.modules.osmosis.OsmosisSim
    • etomica.modules.pistoncylinder.PistonCylinder
    • etomica.polydisperseHS.PolydisperseHS
    • etomica.models.clathrates.ProtonDisorderGenerator
    • etomica.modules.reactionequilibrium.ReactionEquilibrium (implements etomica.atom.AtomLeafAgentManager.AgentSource<E>)
    • etomica.modules.rosmosis.ReverseOsmosis
    • etomica.modules.rosmosis.ReverseOsmosisWater
    • etomica.modules.sam.Sam
    • etomica.modules.selfassembly.SelfAssemblySim
    • etomica.normalmode.SimBennet
    • etomica.normalmode.SimCalcJ
    • etomica.normalmode.SimCalcS
    • etomica.normalmode.SimCalcSLJ
    • etomica.normalmode.SimCalcSMorse
    • etomica.normalmode.SimCalcSSoftSphere2D
    • etomica.normalmode.SimCalcSSoftSphereFCC
    • etomica.normalmode.SimCalcSSoftSphereFCCSuperBox
    • etomica.dimer.SimDimerLJadatom
    • etomica.models.nitrogen.SimDirectBetaN2RP
    • etomica.models.nitrogen.SimDirectBetaN2RPAngleToNoAngle
    • etomica.models.nitrogen.SimDirectBetaN2RPInitPert
    • etomica.models.nitrogen.SimDirectDisorderedAlphaN2RPInitPert
    • etomica.normalmode.SimEinStep1
    • etomica.normalmode.SimEinStep1HCP
    • etomica.normalmode.SimEinStep2
    • etomica.normalmode.SimEinStep2HCP
    • etomica.freeenergy.npath.SimFe
    • etomica.normalmode.SimFluidSoftSphere
    • etomica.association.GCPMWater.SimGCPMWaterMCNPT
    • etomica.association.GCPMWater.SimGCPMWaterMCNVT
    • etomica.modules.glass.SimGlass
    • etomica.normalmode.SimHarmonic
    • etomica.normalmode.SimHarmonicUmbrella
    • etomica.normalmode.SimHSMDVacancy
    • etomica.freeenergy.npath.SimIdealGas
    • etomica.kmc.SimKMCLJadatom
    • etomica.freeenergy.npath.SimLattice
    • etomica.freeenergy.npath.SimLJ
    • etomica.normalmode.SimLJHTTISuper
    • etomica.normalmode.SimLJHTTISuperHCP
    • etomica.normalmode.SimLJHTTISuperHCP2
    • etomica.normalmode.SimLJHTTISuperSFMD
    • etomica.normalmode.SimLJVacancy
    • etomica.mappedRdf.SimMappedRdf
    • etomica.normalmode.SimModesJ
    • etomica.normalmode.SimOverlap
    • etomica.models.nitrogen.SimOverlapAlphaN2TP
    • etomica.models.nitrogen.SimOverlapBetaN2RP
    • etomica.models.nitrogen.SimOverlapBetaN2RPScaling
    • etomica.models.nitrogen.SimOverlapBetaN2TP
    • etomica.models.nitrogen.SimOverlapDisorderedAlphaN2RPScaling
    • etomica.models.nitrogen.SimOverlapDisorderedAlphaN2TP
    • etomica.normalmode.SimOverlapLJ
    • etomica.models.nitrogen.SimOverlapNitrogenModel
    • etomica.normalmode.SimOverlapSoftSphere
    • etomica.normalmode.SimOverlapSoftSphereDP
    • etomica.normalmode.SimOverlapSoftSphereEin
    • etomica.normalmode.SimOverlapSoftSphereEinHarm
    • etomica.normalmode.SimOverlapSoftSphereHCP
    • etomica.normalmode.SimOverlapSoftSphereReweighting
    • etomica.normalmode.SimOverlapSoftSphereSoftness
    • etomica.normalmode.SimOverlapSoftSphereSuperBox
    • etomica.normalmode.SimOverlapSoftSphereTP
    • etomica.normalmode.SimOverlapSoftSphereTPHCP
    • etomica.normalmode.SimOverlapSoftSphereTPSlantedBox
    • etomica.normalmode.SimOverlapSSnxy
    • etomica.normalmode.SimTarget
    • etomica.normalmode.SimTargetUmbrella
    • etomica.models.nitrogen.SimulationAlphaNitrogenModel
    • etomica.models.nitrogen.SimulationBetaNitrogenModel
    • etomica.models.nitrogen.SimulationBetaNitrogenModelTest
    • etomica.models.nitrogen.SimulationGammaNitrogenModel
    • etomica.modules.rheology.SimulationRheology
    • etomica.virial.simulations.SimulationVirial
      • etomica.virial.simulations.SimulationVirialDiagram
      • etomica.virial.simulations.SimulationVirialUmbrella
    • etomica.virial.simulations.SimulationVirialOverlap2
    • etomica.normalmode.SimUmbrella
    • etomica.normalmode.SimUmbrellaSoftSphere
    • etomica.simulation.prototypes.SoftSphere3d
    • etomica.starpolymer.StarPolymerMC
    • etomica.starpolymer.StarPolymerMD
    • etomica.modules.swmd.Swmd
    • etomica.simulation.prototypes.SWMD2D
    • etomica.simulation.prototypes.SWMD3D
    • etomica.modules.nucleation.SWVLESim
    • etomica.association.AceticAcid.TestAceticAcidMC3D_NPT
    • etomica.models.water.TestEwaldTIP4PWater
    • etomica.tests.TestHSMD3D
    • etomica.association.TestIGAssociationMC3D_NPT_DoubleSites
    • etomica.tests.TestLammpsLJ
    • etomica.association.TestLJAssociationMC3D_NPT
    • etomica.virial.simulations.TestLJAssociationMC3D_NPT
    • etomica.association.TestLJAssociationMC3D_NPT_DoubleSites
    • etomica.association.TestLJAssociationMC3D_NVTOld
    • etomica.tests.TestLJGCMC3D
    • etomica.tests.TestLJMC3D
    • etomica.tests.TestLJMD3D
    • etomica.tests.TestSWChain
    • etomica.dielectric.TIP4P_NVT
    • etomica.heVLE.VLESim
    • etomica.modules.vle.VLESim
    • etomica.zeolite.ZeoliteSimulation
  • etomica.server.representations.SimulationConstructor
  • etomica.action.SimulationDataAction (implements etomica.action.IAction, java.io.Serializable)
  • etomica.simulation.SimulationEventManager
  • etomica.graphics.SimulationGraphic (implements etomica.simulation.SimulationContainer)
    • etomica.modules.adsorption.AdsorptionGraphic
    • etomica.modules.catalysis.CatalysisGraphic
    • etomica.modules.chainequilibrium.ChainEquilibriumGraphic
    • etomica.modules.colloid.ColloidGraphic
    • etomica.dcvgcmd.DCVGCMDGraphic
    • etomica.modules.dcvgcmd.DCVGCMDGraphic
    • etomica.modules.droplet.DropletAtomicGraphic
    • etomica.modules.droplet.DropletGraphic
    • etomica.modules.chainequilibrium.FreeRadicalPolymerizationGraphic
    • etomica.modules.glass.GlassGraphic
    • etomica.normalmode.nptdemo.HSNPT2DGraphic
    • etomica.normalmode.HTTPSoftSphereApplet
    • etomica.modules.insertion.InsertionGraphic
    • etomica.modules.interfacial.InterfacialSWGraphic
    • etomica.modules.ensembles.LJMCGraphic
    • etomica.modules.ljmd.LjmdGraphic
    • etomica.modules.materialfracture.MaterialFractureGraphic
    • etomica.modules.mu.MuGraphic
    • etomica.modules.multiharmonic.MultiharmonicGraphic
    • etomica.modules.multiharmonic.mbar.MultiharmonicGraphicMC
    • etomica.modules.multiharmonic.MultiharmonicGraphicMC
    • etomica.modules.multiharmonic.overlap.MultiharmonicGraphicMC
    • etomica.modules.multiharmonic.umbrella.MultiharmonicGraphicMC
    • etomica.normalmode.NormalModeAnalysisDisplay1DGraphic
    • etomica.normalmode.NormalModeAnalysisDisplay2DGraphic
    • etomica.normalmode.NormalModeAnalysisDisplay3DGraphic
    • etomica.modules.nucleation.NucleationGraphic
    • etomica.modules.osmosis.Osmosis
    • etomica.modules.pistoncylinder.PistonCylinderGraphic
    • etomica.modules.reactionequilibrium.ReactionEquilibriumGraphic
    • etomica.modules.rosmosis.ReverseOsmosisGraphic
    • etomica.modules.rosmosis.ReverseOsmosisWaterGraphic
    • etomica.modules.rheology.RheologyGraphic
    • etomica.modules.sam.SamGraphic
    • etomica.modules.selfassembly.SelfAssemblyGraphic
    • etomica.modules.statistics.StatisticsMCGraphic
    • etomica.modules.swmd.SwmdGraphic
    • etomica.modules.nucleation.SWVLE
    • etomica.heVLE.VLE
    • etomica.modules.vle.VLE
    • etomica.zeolite.zeoliteSimGraphic
  • etomica.meta.SimulationModel
  • etomica.server.resources.SimulationResource
  • etomica.action.SimulationRestart (implements etomica.action.IAction)
  • etomica.virial.GUI.components.SimulationRunner
  • etomica.server.resources.SimulationsIndexResource
  • etomica.math.numerical.SineTransform
  • etomica.virial.simulations.SingleAssociationSiteFluid
  • etomica.virial.simulations.SingleAssociationSiteFluid2
  • etomica.virial.simulations.SingleAssociationSiteFluid2Pt
  • etomica.virial.simulations.SingleAssociationSiteFluid3Pt
  • etomica.virial.simulations.SingleAssociationSiteFluid4Points
  • etomica.virial.simulations.SingleAssociationSiteFluid4Pt
  • etomica.virial.simulations.SingleAssociationSiteFluidGraph
  • etomica.rotation.SingleDipole
  • etomica.rotation.SingleDumbellRattle
  • etomica.rotation.SingleDumbellShake
  • etomica.rotation.SingleWater
  • etomica.rotation.SingleWaterMatrix
  • etomica.rotation.SingleWaterRattle
  • etomica.rotation.SingleWaterShake
  • etomica.normalmode.SoftSphereSolidEOS
  • etomica.space.Space (implements java.io.Serializable)
    • etomica.space1d.Space1D
    • etomica.space2d.Space2D
    • etomica.space3d.Space3D
  • etomica.math.SpecialFunctions
  • etomica.virial.Species7SiteRigidSF6
  • etomica.models.OPLS.SpeciesAceticAcid
  • etomica.species.SpeciesAgentManager<E>
  • etomica.virial.SpeciesAlkane
  • etomica.AlkaneEH.SpeciesAlkaneEH
  • etomica.virial.SpeciesAnthracene3site464
  • etomica.virial.SpeciesAnthracene3site545
  • etomica.species.SpeciesBuilder
  • etomica.models.rowley.SpeciesEthanol
  • etomica.models.traPPE.SpeciesFactoryMethanol (implements java.io.Serializable, etomica.virial.SpeciesFactory)
  • etomica.virial.SpeciesFactorySpheres (implements java.io.Serializable, etomica.virial.SpeciesFactory)
  • etomica.virial.SpeciesFactoryWaterGCPM (implements java.io.Serializable, etomica.virial.SpeciesFactory)
  • etomica.species.SpeciesFileParser
  • etomica.species.SpeciesGeneral (implements etomica.species.ISpecies)
  • etomica.species.SpeciesGeneralMutable (implements etomica.species.ISpecies)
  • etomica.normalmode.SpeciesHSDimer
  • etomica.AlkaneEH.SpeciesMethane
  • etomica.models.rowley.SpeciesMethanol
  • etomica.models.traPPE.SpeciesMethanol
  • etomica.models.nitrogen.SpeciesN2
  • etomica.models.nitrogen.SpeciesN2ShellModel
  • etomica.virial.SpeciesPh3site464
  • etomica.virial.SpeciesPh3site545
  • etomica.species.SpeciesPolyhedron
  • etomica.starpolymer.SpeciesPolymerMono
  • etomica.species.SpeciesSpheresRotating
  • etomica.species.SpeciesSpheresRotatingMolecule
  • etomica.virial.SpeciesTraPPEAnthracene
  • etomica.models.co2.SpeciesTraPPECO2
  • etomica.virial.SpeciesTraPPENaphthalene
  • etomica.virial.SpeciesTraPPEPhenanthrene
  • etomica.models.water.SpeciesWater3P
  • etomica.models.water.SpeciesWater4P
  • etomica.models.water.SpeciesWater4PCOM
  • org.jmol.g3d.SphereRenderer
  • etomica.graph.operations.Split (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.SplitGraph
  • etomica.graph.operations.SplitOne (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.SplitOne.SplitOneParameters (implements etomica.graph.operations.Parameters)
    • etomica.graph.operations.SplitOneBiconnected.SplitOneParametersBC
  • etomica.graph.operations.SplitOneBiconnected (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.SplitParameters (implements etomica.graph.operations.Parameters)
  • etomica.virial.cluster.Standard
  • org.jmol.constant.StaticConstants
  • etomica.modules.statistics.StatisticsMCGraphic.HistoryPlotBits
  • etomica.modules.statistics.StatisticsMCGraphic.MyFunctionInvertible (implements etomica.math.function.FunctionDifferentiable, etomica.math.function.FunctionInvertible)
  • etomica.server.representations.StatusAction
  • etomica.math.numerical.SteepestDescent
  • etomica.graph.iterators.StoredIterator (implements etomica.graph.model.GraphIterator)
  • etomica.util.Strings
  • org.jmol.util.StringXBuilder
  • etomica.modules.glass.StructorFactorComponentExtractor (implements etomica.data.IDataSink)
  • etomica.modules.glass.StructureFactorComponentCorrelation (implements etomica.modules.glass.DataSinkBlockAveragerSFac.Sink, etomica.data.DataSourceIndependent)
  • etomica.modules.glass.StructureFactorComponentCorrelation.Meter (implements etomica.data.IDataSource)
  • etomica.modules.glass.StructureFactorComponentCorrelation.Sink (implements etomica.data.IDataSink)
  • etomica.graph.operations.Sub (implements etomica.graph.operations.Binary)
  • etomica.graph.operations.Sum (implements etomica.graph.operations.Binary)
  • etomica.graph.view.rasterizer.SVGConverter
  • etomica.graph.view.rasterizer.SVGConverter.SVGFileFilter (implements java.io.FileFilter)
  • etomica.graph.view.rasterizer.SVGConverterDocumentSource (implements etomica.graph.view.rasterizer.SVGConverterSource)
  • etomica.graph.view.rasterizer.SVGConverterFileSource (implements etomica.graph.view.rasterizer.SVGConverterSource)
  • etomica.graph.view.rasterizer.SVGConverterURLSource (implements etomica.graph.view.rasterizer.SVGConverterSource)
  • etomica.modules.swmd.SwmdGraphic.ModifierAtomDiameter (implements etomica.modifier.Modifier)
  • etomica.space1d.Tensor1D (implements java.io.Serializable, etomica.space.Tensor)
    • etomica.space1d.RotationTensor1D (implements etomica.space.RotationTensor)
  • etomica.space2d.Tensor2D (implements java.io.Serializable, etomica.space.Tensor)
    • etomica.space2d.RotationTensor2D (implements etomica.space.RotationTensor)
  • etomica.space3d.Tensor3D (implements java.io.Serializable, etomica.space.Tensor)
    • etomica.space3d.RotationTensor3D (implements etomica.space.RotationTensor)
  • etomica.spaceNd.TensorND (implements etomica.space.Tensor)
  • etomica.models.nitrogen.TestRotationVector
  • org.jmol.util.TextFormat
  • java.lang.Thread (implements java.lang.Runnable)
    • etomica.virial.simulations.VirialHSBinMultiThreaded.SimulationWorker
    • etomica.virial.simulations.VirialSQWBinMultiThreaded.SimulationWorker
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • etomica.virial.GUI.components.ExceptionDoNotRemoveSpecies
      • etomica.virial.GUI.components.ExceptionSameSpeciesSamePotential
      • etomica.virial.GUI.components.ExceptionSingleSiteAtomicPotential
      • etomica.graph.engine.Interpreter.InterpreterException
      • etomica.graph.engine.Parser.ParserException
      • java.lang.RuntimeException
        • etomica.exception.AbnormalCompletionException
        • etomica.exception.ConfigurationOverlapException
        • etomica.exception.MethodNotImplementedException
      • etomica.graph.view.rasterizer.SVGConverterException
  • etomica.dielectric.TIP4P_NVT.DipoleSourceTIP4PWater (implements etomica.molecule.DipoleSource)
  • org.jmol.script.Token
    • org.jmol.script.ScriptVariable
      • org.jmol.script.ScriptVariableInt
  • g3dsys.control.TransformManager
  • etomica.util.TreeLinker
  • etomica.util.TreeList (implements java.io.Serializable)
  • org.jmol.util.TriangleData
  • org.jmol.util.Tuple3f (implements java.io.Serializable)
    • org.jmol.util.Point3f
      • org.jmol.util.Point3fi
    • org.jmol.util.Vector3f
  • org.jmol.util.Tuple3i (implements java.io.Serializable)
    • org.jmol.util.Point3i
  • org.jmol.util.Tuple4f (implements java.io.Serializable)
    • org.jmol.util.Point4f
  • etomica.graph.operations.UnaryChain (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.UnaryChain.ChainParameters (implements etomica.graph.operations.Parameters)
  • etomica.graph.engine.impl.UnaryOpImpl (implements etomica.graph.engine.Parser.UnaryOp)
    • etomica.graph.engine.impl.UnaryOpByteImpl (implements etomica.graph.engine.Parser.UnaryOpByte)
    • etomica.graph.engine.impl.UnaryOpByteMapImpl (implements etomica.graph.engine.Parser.UnaryOpByteMap)
    • etomica.graph.engine.impl.UnaryOpColorImpl (implements etomica.graph.engine.Parser.UnaryOpColor)
    • etomica.graph.engine.impl.UnaryOpThreeColorImpl (implements etomica.graph.engine.Parser.UnaryOpThreeColor)
    • etomica.graph.engine.impl.UnaryOpTwoByteImpl (implements etomica.graph.engine.Parser.UnaryOpTwoByte)
  • etomica.graph.operations.Unfactor (implements etomica.graph.operations.Unary)
  • etomica.graph.operations.Union (implements etomica.graph.operations.Binary)
  • etomica.units.gui.UnitFilter
  • etomica.units.gui.UnitGraphics
  • etomica.units.systems.UnitSystem
    • etomica.units.systems.CGS
    • etomica.units.systems.LJ
    • etomica.units.systems.MKS
    • etomica.units.systems.UnitSystem.Sim
  • etomica.veos.Ushcats
  • etomica.liquidLJ.ValueCache
  • etomica.graph.engine.impl.ValueImpl (implements etomica.graph.engine.Parser.Value)
  • etomica.veos.VanderWaals (implements etomica.veos.BetaSource)
  • etomica.graph.engine.impl.VariableImpl (implements etomica.graph.engine.Parser.Variable)
  • etomica.space1d.Vector1D (implements java.io.Serializable, etomica.space.Vector)
  • etomica.space2d.Vector2D (implements java.io.Serializable, etomica.space.Vector)
  • etomica.space3d.Vector3D (implements java.io.Serializable, etomica.space.Vector)
  • etomica.spaceNd.VectorND (implements java.io.Serializable, etomica.space.Vector)
  • etomica.meta.properties.VectorProperty (implements etomica.meta.properties.Property)
  • etomica.polydisperseHS.VelocityWriter (implements etomica.action.IAction)
  • etomica.virial.simulations.Virial2CLJmuQ
  • etomica.virial.simulations.Virial2CLJQ
  • etomica.virial.simulations.Virial7SiteRigidSF6
  • etomica.virial.simulations.VirialAceticAcid
  • etomica.virial.simulations.VirialAceticAcidFlex
  • etomica.virial.simulations.VirialAlkane
  • etomica.virial.simulations.VirialAlkaneEHTest
  • etomica.virial.simulations.VirialAlkaneFlex
  • etomica.virial.simulations.VirialAlkaneFull
  • etomica.virial.simulations.VirialAlkaneMix
    • etomica.virial.simulations.VirialAlkaneMix_Kong
  • etomica.virial.simulations.VirialAlkaneMix2
  • etomica.virial.simulations.VirialAlkaneMix2_Kong
  • etomica.virial.simulations.VirialAlkaneSKS
  • etomica.virial.simulations.VirialAnthracene464
  • etomica.virial.simulations.VirialAnthracene545
  • etomica.virial.simulations.VirialAnthraceneTraPPE
  • etomica.virial.simulations.VirialAssociatingFluid
    • etomica.virial.simulations.VirialAssociatingFluid4points
  • etomica.virial.simulations.VirialB2WaterTIP4P_DHS_difference
  • etomica.virial.simulations.VirialB2WaterTIP4P_DHS_difference.MuDeltaEBond (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.simulations.VirialB3C1HSDipole
  • etomica.virial.simulations.VirialB3C1TIP4Pwater
  • etomica.virial.simulations.VirialB3C1TIP4Pwater.MuFBond (implements etomica.virial.MayerFunction)
  • etomica.virial.simulations.VirialB3C2HSDipole
  • etomica.virial.simulations.VirialB3C2TIP4Pwater
  • etomica.virial.simulations.VirialB3C2TIP4Pwater.fPlusBetaEU (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.simulations.VirialB3C2TIP4Pwater.MuProduct (implements etomica.virial.MayerFunction, java.io.Serializable)
  • etomica.virial.simulations.VirialCH4AlkaneEHMix
  • etomica.virial.simulations.VirialCO2
  • etomica.virial.simulations.VirialCO2AlkaneEHMix
  • etomica.virial.simulations.VirialCO2AlkaneUAMix
  • etomica.virial.simulations.VirialCO2anthracene464
  • etomica.virial.simulations.VirialCO2anthracene545
  • etomica.virial.simulations.VirialCO2AnthraceneTraPPE
  • etomica.virial.simulations.VirialCO2CH4Mix
  • etomica.virial.simulations.VirialCO2CH4UAMix
  • etomica.virial.simulations.VirialCO2CH4UAMixWheatley
  • etomica.virial.simulations.VirialCO2H2OGCPM
  • etomica.virial.simulations.VirialCO2H2OGCPMX
  • etomica.virial.simulations.VirialCO2H2OSC
  • etomica.virial.simulations.VirialCO2LJQ
  • etomica.virial.simulations.VirialCO2N2Mix
  • etomica.virial.simulations.VirialCO2NaphthaleneLJQ
  • etomica.virial.simulations.VirialCO2NaphthaleneTraPPE
  • etomica.virial.simulations.VirialCO2PI
  • etomica.virial.simulations.VirialCO2SKSMix
  • etomica.virial.simulations.VirialCO2TraPPE
  • etomica.virial.simulations.VirialCPSHeliumNonAdditive
  • etomica.virial.simulations.VirialCPSHeliumNonAdditiveClassical
  • etomica.virial.simulations.VirialCPSHeliumNonAdditiveClassical_Correction
  • etomica.virial.cluster.VirialDiagrams
    • etomica.virial.cluster.ExternalVirialDiagrams
  • etomica.virial.cluster.VirialDiagrams.ArticulatedAt0 (implements etomica.graph.property.Property)
  • etomica.virial.cluster.VirialDiagrams.ComparatorNumFieldNodesExchange (implements java.util.Comparator<T>)
  • etomica.virial.cluster.VirialDiagramsMix
  • etomica.virial.cluster.VirialDiagramsMix2
  • etomica.virial.cluster.VirialDiagramsMix2.MaxIsomorphCriteriaMixture (implements etomica.graph.property.Property)
  • etomica.virial.cluster.VirialDiagramsPT
  • etomica.virial.cluster.VirialDiagramsPT.ArticulatedAt0 (implements etomica.graph.property.Property)
  • etomica.virial.cluster.VirialDiagramsPT.ComparatorNumFieldNodesExchange (implements java.util.Comparator<T>)
  • etomica.virial.cluster.VirialDiagramsPT.DiscardCriteria (implements etomica.graph.property.Property)
  • etomica.virial.simulations.VirialEmulNonAdditive
  • etomica.virial.simulations.VirialExternalFieldConfinedOverlap
  • etomica.virial.simulations.VirialExternalFieldConfinedOverlapRho
  • etomica.virial.simulations.VirialExternalFieldConfinedOverlapSW
  • etomica.virial.simulations.VirialExternalFieldOverlapRho
  • etomica.virial.simulations.VirialGCPM
  • etomica.virial.simulations.VirialGCPMGraphic
  • etomica.virial.simulations.VirialH2O
  • etomica.virial.simulations.VirialH2OGCPMD
  • etomica.virial.simulations.VirialH2OGCPMD.Clusterfoo (implements etomica.virial.ClusterWeight)
  • etomica.virial.simulations.VirialH2PI
  • etomica.virial.simulations.VirialH2PIBoltzmann
  • etomica.virial.simulations.VirialH2PISimple
  • etomica.virial.simulations.VirialH2PIXC
  • etomica.virial.simulations.VirialH2PYCorrection
  • etomica.virial.simulations.VirialHardAssociationCone
  • etomica.virial.simulations.VirialHardAssociationConeDoubleSites
  • etomica.virial.simulations.VirialHeD
  • etomica.virial.simulations.VirialHeNonAdditive
  • etomica.virial.simulations.VirialHeNonAdditiveD
  • etomica.virial.simulations.VirialHeNonAdditiveWheatley
  • etomica.virial.simulations.VirialHePCKLJS
  • etomica.virial.simulations.VirialHePCKLJSCHNCCorrection
  • etomica.virial.simulations.VirialHePCKLJSPYCorrection
  • etomica.virial.simulations.VirialHePCKLJSTempDeriv
  • etomica.virial.simulations.VirialHePI
  • etomica.virial.simulations.VirialHePI_PotentialCorrection
  • etomica.virial.simulations.VirialHePIGraphic
  • etomica.virial.simulations.VirialHePISysErr
  • etomica.virial.simulations.VirialHePIXC
  • etomica.virial.simulations.VirialHePIXCEven
  • etomica.virial.simulations.VirialHePIXCOdd
  • etomica.virial.simulations.VirialHePYCorrection
  • etomica.virial.simulations.VirialHeSC
  • etomica.virial.simulations.VirialHS
  • etomica.virial.simulations.VirialHSBinMultiThreaded
  • etomica.virial.simulations.VirialHSBinMultiThreaded.DooDad
  • etomica.virial.simulations.VirialHSMixture
  • etomica.virial.simulations.VirialHSMixtureOverlap
  • etomica.virial.simulations.VirialHSOrC
  • etomica.virial.simulations.VirialLJ
  • etomica.virial.simulations.VirialLJBridge
  • etomica.virial.simulations.VirialLJCHNCCorrection
  • etomica.virial.simulations.VirialLJD
  • etomica.virial.simulations.VirialLJDU
  • etomica.virial.simulations.VirialLJMultiOverlap
  • etomica.virial.simulations.VirialLJOrC
  • etomica.virial.simulations.VirialLJOrICPYC
  • etomica.virial.simulations.VirialLJPT
  • etomica.virial.simulations.VirialLJPYCorrection
  • etomica.modules.vle.VirialLJQB2
  • etomica.virial.simulations.VirialLJSeries
  • etomica.virial.simulations.VirialMethaneEH
  • etomica.virial.simulations.VirialN2
  • etomica.virial.simulations.VirialN2AlkaneEHMix
  • etomica.virial.simulations.VirialN2AlkaneUAMix
  • etomica.virial.simulations.VirialN2AlkaneUARigid
  • etomica.virial.simulations.VirialN2CH4Mix
  • etomica.virial.simulations.VirialN2CH4UAMix
  • etomica.virial.simulations.VirialN2PI
  • etomica.virial.simulations.VirialN2TraPPE
  • etomica.virial.simulations.VirialNaphthaleneTraPPE
  • etomica.virial.simulations.VirialO2
  • etomica.virial.simulations.VirialO2PI
  • etomica.math.numerical.VirialOptimizer
  • etomica.virial.simulations.VirialPh464
  • etomica.virial.simulations.VirialPh545
  • etomica.virial.simulations.VirialPhenanthreneTraPPE
  • etomica.virial.simulations.VirialPolyhedra
  • etomica.virial.simulations.VirialPolyhedra2
  • etomica.starpolymer.VirialPolymerOverlapMC
  • etomica.starpolymer.VirialPolymerOverlapWithMD
  • etomica.starpolymer.VirialPolymerOverlapWithMDB3
  • etomica.virial.simulations.VirialRowleyAlcohol
  • etomica.virial.simulations.VirialSF6LJAlkaneUAMix
  • etomica.virial.simulations.VirialSQWBinMultiRecalcW
  • etomica.virial.simulations.VirialSQWBinMultiThreaded
  • etomica.virial.simulations.VirialSQWRecalcSmallMem
  • etomica.virial.simulations.VirialSW
  • etomica.virial.simulations.VirialSwsPT
  • etomica.virial.simulations.VirialSWWE
  • etomica.virial.simulations.VirialTraPPE
  • etomica.virial.simulations.VirialTraPPE.TraPPEParams
  • etomica.virial.simulations.VirialTraPPEAlcohol
  • etomica.virial.simulations.VirialWaterOverlap
  • etomica.rotation.WaterBox
  • etomica.rotation.WaterDroplet
  • etomica.rotation.WaterDropletMatrix
  • etomica.rotation.WaterDropletRattle
  • etomica.rotation.WaterDropletShake
  • etomica.rotation.WaterTrimer
  • etomica.rotation.WaterTrimerRattle
  • etomica.rotation.WaterTrimerShake
  • etomica.normalmode.WaveVectorFactory1D (implements java.io.Serializable, etomica.normalmode.WaveVectorFactory)
  • etomica.normalmode.WaveVectorFactory2D (implements java.io.Serializable, etomica.normalmode.WaveVectorFactory)
  • etomica.normalmode.WaveVectorFactoryFcc (implements java.io.Serializable, etomica.normalmode.WaveVectorFactory)
  • etomica.normalmode.WaveVectorFactoryFromFile (implements etomica.normalmode.WaveVectorFactory)
  • etomica.normalmode.WaveVectorFactorySimple (implements java.io.Serializable, etomica.normalmode.WaveVectorFactory)
    • etomica.normalmode.WaveVectorFactorySuperBox
  • etomica.association.AceticAcid.Wertheim2SiteAceticAcid
  • etomica.virial.cluster.WertheimDiagrams2SiteRho
  • etomica.virial.cluster.WertheimDiagrams3SiteRho
  • etomica.association.GCPMWater.WertheimGCPM3PtEBondDecomp
  • etomica.association.GCPMWater.WertheimGCPM3PtThreeSite
  • etomica.association.GCPMWater.WertheimGCPM4PtEBondDecomp
  • etomica.association.GCPMWater.WertheimGCPM4PtEBondDecompFinal
  • etomica.association.GCPMWater.WertheimGCPM4PtThreeSite
  • etomica.association.GCPMWater.WertheimGCPM4PtThreeSiteEDecompDirectSampling
  • etomica.veos.bigdecimal.Wigner3j
  • etomica.veos.bigdecimal.Wigner3jGUI (implements java.awt.event.ActionListener, javax.swing.event.ListSelectionListener)
  • java.awt.event.WindowAdapter (implements java.awt.event.WindowFocusListener, java.awt.event.WindowListener, java.awt.event.WindowStateListener)
    • etomica.virial.GUI.views.ViewConsoleOutputBox (implements java.awt.event.ActionListener, java.lang.Runnable, java.awt.event.WindowListener)
  • etomica.meta.wrappers.Wrapper<T>
    • etomica.meta.wrappers.ObjectWrapper<T>
      • etomica.meta.wrappers.SimulationWrapper
  • etomica.meta.WrapperIndex
  • etomica.action.WriteConfiguration (implements etomica.action.IAction)
    • etomica.interfacial.WriteConfigurationInterfacial
    • etomica.action.WriteConfigurationOriented
  • etomica.action.WriteConfigurationBinary (implements etomica.action.IAction)
  • etomica.action.WriteConfigurationDLPOLY (implements etomica.action.IAction)
  • etomica.action.WriteConfigurationP2DLPOLY (implements etomica.action.IAction)
  • etomica.util.WriteParameters (implements java.io.Serializable)
  • etomica.normalmode.WriteS (implements etomica.action.IAction)
  • etomica.action.XYZWriter (implements etomica.action.IAction, java.io.Serializable)
  • etomica.zeolite.Zeolite

Interface Hierarchy

• etomica.lattice.AbstractLattice<T>
  • etomica.lattice.FiniteLattice<T>
  • etomica.lattice.SpaceLattice
    • etomica.lattice.CubicLattice
• etomica.data.AccumulatorAverageBootstrap.HistogramFactory
• etomica.modules.statistics.AccumulatorFactory
• etomica.overlap.AlphaSource
• org.jmol.api.ApiPlatform
• etomica.association.AssociationDefinition
• etomica.association.AssociationDefinitionMolecule
• etomica.action.AtomAction
• etomica.atom.AtomLeafAgentManager.AgentSource<E>
• etomica.atom.iterator.AtomsetIterator
  • etomica.atom.iterator.AtomLeafsetIterator
    • etomica.atom.iterator.AtomIterator
      • etomica.atom.iterator.AtomIteratorAtomDependent
      • etomica.atom.iterator.AtomIteratorBasisDependent (also extends etomica.atom.iterator.AtomsetIteratorBasisDependent)
      • etomica.atom.iterator.AtomIteratorBoxDependent (also extends etomica.atom.iterator.AtomsetIteratorBoxDependent)
    • etomica.atom.iterator.AtomsetIteratorBoxDependent
      • etomica.atom.iterator.AtomIteratorBoxDependent (also extends etomica.atom.iterator.AtomIterator)
      • etomica.atom.iterator.AtomsetIteratorPDT (also extends etomica.atom.iterator.AtomsetIteratorDirectable, etomica.atom.iterator.AtomsetIteratorTargetable)
    • etomica.atom.iterator.AtomsetIteratorTargetable
      • etomica.atom.iterator.AtomsetIteratorBasisDependent
        • etomica.atom.iterator.AtomIteratorBasisDependent (also extends etomica.atom.iterator.AtomIterator)
      • etomica.atom.iterator.AtomsetIteratorPDT (also extends etomica.atom.iterator.AtomsetIteratorBoxDependent, etomica.atom.iterator.AtomsetIteratorDirectable)
  • etomica.atom.iterator.AtomsetIteratorDirectable
    • etomica.atom.iterator.AtomsetIteratorPDT (also extends etomica.atom.iterator.AtomsetIteratorBoxDependent, etomica.atom.iterator.AtomsetIteratorTargetable)
    • etomica.molecule.iterator.MoleculesetIteratorPDT (also extends etomica.molecule.iterator.MoleculesetIteratorBoxDependent, etomica.molecule.iterator.MoleculesetIteratorTargetable)
  • etomica.molecule.iterator.MoleculesetIterator
    • etomica.molecule.iterator.MoleculeIterator
      • etomica.molecule.iterator.MoleculeIteratorBoxDependent (also extends etomica.molecule.iterator.MoleculesetIteratorBoxDependent)
      • etomica.molecule.iterator.MoleculeIteratorMoleculeDependent
    • etomica.molecule.iterator.MoleculesetIteratorBoxDependent
      • etomica.molecule.iterator.MoleculeIteratorBoxDependent (also extends etomica.molecule.iterator.MoleculeIterator)
      • etomica.molecule.iterator.MoleculesetIteratorPDT (also extends etomica.atom.iterator.AtomsetIteratorDirectable, etomica.molecule.iterator.MoleculesetIteratorTargetable)
    • etomica.molecule.iterator.MoleculesetIteratorTargetable
      • etomica.molecule.iterator.MoleculesetIteratorBasisDependent
      • etomica.molecule.iterator.MoleculesetIteratorPDT (also extends etomica.atom.iterator.AtomsetIteratorDirectable, etomica.molecule.iterator.MoleculesetIteratorBoxDependent)
• etomica.nbr.cell.AtomsetIteratorCellular
• etomica.atom.AtomSource
• etomica.modules.glass.AtomStressSource
• etomica.atom.AtomToAtomLeafList
• etomica.atom.AtomToIndex
• etomica.atom.AtomTypeAgentManager.AgentSource<E>
• etomica.BenchBox.IVecSys
• etomica.veos.BetaSource
• java.util.function.BiConsumer<T,U>
  • etomica.nbr.NeighborIterator.AtomPairConsumer
• etomica.graph.operations.Binary
• etomica.space.BoundaryEventListener
• etomica.box.BoxAgentManager.BoxAgentSource<E>
• etomica.box.BoxCellManager
• etomica.box.BoxEventListener
• java.lang.Cloneable
  • etomica.space.Tensor
    • etomica.space.RotationTensor
• etomica.virial.ClusterAbstract
  • etomica.virial.ClusterAbstractMultivalue
  • etomica.virial.ClusterWeight
  • etomica.virial.ClusterWheatley
• etomica.virial.ClusterSumAssociation.ClusterCriteria
• etomica.virial.ClusterWeight.Factory
• etomica.graph.model.Coefficient
• etomica.graphics.ColorSchemeCollective
• java.lang.Comparable<T>
  • etomica.graph.model.Bitmap
  • etomica.graph.model.Edge
  • etomica.graph.model.Graph
  • etomica.graph.model.Metadata
  • etomica.graph.model.Node
• etomica.config.Configuration
• etomica.modules.glass.ConfigurationStorage.ConfigurationStorageListener
• etomica.graph.engine.Console
• etomica.graph.engine.ConsoleContainer
• etomica.graph.engine.ConsoleReader
• etomica.normalmode.CoordinateDefinitionHSDimer.IntegerFunction
• etomica.virial.CoordinatePairSet
• etomica.data.DataDistributer.Indexer
• etomica.overlap.DataOverlap.DataSourceOverlapAvg
  • etomica.overlap.DataOverlap.DataSourceOverlapLogAvg
• etomica.data.DataSetListener
  • etomica.data.DataTableListener
• etomica.modules.glass.DataSinkBlockAveragerSFac.Sink
• etomica.data.DataSourceAtomic
• etomica.data.DataSourceIndependent
• etomica.data.DataSourceMolecular
• etomica.modules.glass.DataSourceMSD.MSDSink
• etomica.data.DataSourcePositioned
• etomica.data.DataSplitter.IDataSinkFactory
• etomica.virial.cluster.DiagramSource
• etomica.atom.DiameterHash
• etomica.molecule.DipoleSource
• etomica.modules.glass.DisplayBoxCanvasGlass
• etomica.graphics.Drawable
• etomica.graph.model.EdgeVisitor
• etomica.chem.electrostatics.Electrostatic
• etomica.graph.engine.Environment
• java.util.EventListener
  • etomica.graphics.DeviceBoxValueChangedListener
• etomica.data.FunctionData<T>
• etomica.math.function.FunctionMultiDimensional
  • etomica.math.function.FunctionMultiDimensionalDifferentiable
• etomica.graph.operations.GraphOp
• etomica.data.histogram.Histogram
• etomica.data.history.History
• etomica.action.IAction
  • etomica.action.ActionGroup
  • etomica.action.BoxAction
  • etomica.action.IntegratorAction
  • etomica.action.Undoable
• etomica.normalmode.IAPIPotential
• etomica.association.IAssociationHelper
• etomica.association.IAssociationHelperMolecule
• etomica.atom.IAtom
  • etomica.atom.IAtomKinetic
    • etomica.atom.IAtomOrientedKinetic (also extends etomica.atom.IAtomOriented)
  • etomica.atom.IAtomOriented
    • etomica.atom.IAtomOrientedKinetic (also extends etomica.atom.IAtomKinetic)
• etomica.veos.IBigValue
• etomica.virial.GUI.components.ICollectionPotential
• etomica.config.IConformation
  • etomica.config.IConformationOriented
• etomica.data.IData
• etomica.data.IDataInfo
• etomica.data.IDataInfoFactory
• etomica.data.IDataSink
  • etomica.data.DataLogger.DataWriter
  • etomica.data.DataPipe
    • etomica.data.DataPipeForked
• etomica.data.IDataSource
  • etomica.virial.ClusterWeightSumWall.DataSourceClusterWall
• etomica.chem.elements.IElement
• etomica.util.IEvent
• etomica.math.function.IFunction
  • etomica.math.function.Function
    • etomica.math.function.FunctionDifferentiable
    • etomica.math.function.FunctionInvertible
• etomica.util.IListener<E>
• etomica.virial.GUI.models.IMolecularModel_SpeciesFactory
• etomica.molecule.IMolecule
  • etomica.molecule.IMoleculeKinetic
    • etomica.molecule.IMoleculeOrientedKinetic (also extends etomica.molecule.IMoleculeOriented)
  • etomica.molecule.IMoleculePositioned
    • etomica.molecule.IMoleculeOriented
      • etomica.molecule.IMoleculeOrientedKinetic (also extends etomica.molecule.IMoleculeKinetic)
• etomica.molecule.IMoleculePositionDefinition
• etomica.lattice.IndexIterator
  • etomica.lattice.IndexIteratorSizable
• g3dsys.control.IndexIterator
• etomica.nbr.list.INeighborListListener
• etomica.nbr.list.molecule.INeighborListListenerMolecular
• etomica.integrator.Integrator.Forcible
• etomica.integrator.Integrator.Torquable
• etomica.integrator.IntegratorHard.CollisionListener
• etomica.integrator.IntegratorListener
  • etomica.integrator.IntegratorListenerMD
• etomica.overlap.IntegratorOverlap.ReferenceFracSource
• etomica.integrator.IntegratorPT.MCMoveSwap
• etomica.integrator.IntegratorPT.MCMoveSwapFactory
• etomica.virial.IntSet.PropertyBin
• etomica.space.IOrientation
  • etomica.space2d.IOrientation2D
  • etomica.space3d.IOrientation3D
    • etomica.space3d.IOrientationFull3D
• etomica.potential.IPotential
  • etomica.potential.IPotential0Lrc
  • etomica.potential.IPotentialAtomic
    • etomica.potential.IPotentialAtomicMultibody
    • etomica.potential.Potential2Spherical
      • etomica.potential.Potential2Soft (also extends etomica.potential.PotentialSoft)
    • etomica.potential.PotentialHard
    • etomica.potential.PotentialSoft
      • etomica.potential.IPotentialTorque
        • etomica.potential.IPotentialAtomicSecondDerivative
      • etomica.potential.Potential2Soft (also extends etomica.potential.Potential2Spherical)
    • etomica.potential.PotentialTruncated
  • etomica.potential.IPotentialMolecular
    • etomica.potential.IPotential0MoleculeLrc
    • etomica.potential.PotentialMolecularSoft
      • etomica.potential.IPotentialMolecularTorque
        • etomica.potential.IPotentialMolecularSecondDerivative
• etomica.modules.rosmosis.IPotentialCalculationWallForce
• etomica.util.random.IRandom
• etomica.species.ISpecies
• java.lang.Iterable<T>
  • java.util.Collection<E>
    • java.util.List<E>
      • etomica.atom.IAtomList
      • etomica.molecule.IMoleculeList
• java.util.Iterator<E>
  • etomica.graph.model.GraphIterator
  • etomica.graph.model.Permutator
• etomica.normalmode.LatticeSumMolecularCrystal.AtomicTensorAtomicPair
• org.jmol.util.LoggerInterface
• etomica.tmmc.MacrostateManager
• etomica.graph.view.rasterizer.Main.OptionHandler
• etomica.virial.MayerFunction
• etomica.virial.MayerFunctionNonAdditive
• etomica.integrator.mcmove.MCMoveMolecular
• etomica.integrator.mcmove.MCMoveStepDependent
• etomica.data.meter.MeterStructureFactor.AtomSignalSource
• etomica.modifier.Modifier
• etomica.modifier.ModifierBoolean
• etomica.action.MoleculeAction
• etomica.molecule.MoleculeAgentManager.MoleculeAgentSource<E>
• etomica.nbr.cell.molecule.MoleculesetIteratorCellular
• etomica.molecule.MoleculeSource
• etomica.molecule.MoleculeToIndex
• etomica.molecule.MoleculeToMoleculeList
• etomica.nbr.NeighborCriterion
• etomica.nbr.molecule.NeighborCriterionMolecular
• etomica.nbr.NeighborIterator
• etomica.graph.model.NodeVisitor
• etomica.normalmode.NormalModes
• etomica.molecule.OrientationCalc
• etomica.molecule.OrientationCalcQuaternion
• etomica.potential.P1IntraMolecular
• etomica.potential.P2SemiclassicalAtomic.AtomInfo
• etomica.potential.P2SemiclassicalMolecular.MoleculeInfo
• etomica.models.water.P2Water4PSoft.AtomicTensorAtomicPair
• etomica.math.geometry.Parallelotope
• etomica.util.ParameterParser
• etomica.graph.operations.Parameters
• etomica.graph.engine.Parser
• etomica.graph.engine.Parser.Expression
  • etomica.graph.engine.Parser.StrictExpression
    • etomica.graph.engine.Parser.BinaryOp
      • etomica.graph.engine.Parser.BinaryOpByte
    • etomica.graph.engine.Parser.Constructor
      • etomica.graph.engine.Parser.ConstructorColored
      • etomica.graph.engine.Parser.ConstructorMono
    • etomica.graph.engine.Parser.UnaryOp
      • etomica.graph.engine.Parser.UnaryOpByte
      • etomica.graph.engine.Parser.UnaryOpByteMap
      • etomica.graph.engine.Parser.UnaryOpColor
      • etomica.graph.engine.Parser.UnaryOpThreeColor
      • etomica.graph.engine.Parser.UnaryOpTwoByte
  • etomica.graph.engine.Parser.Variable
• etomica.graph.engine.Parser.Property
• etomica.graph.engine.Parser.Statement
  • etomica.graph.engine.Parser.Assignment
  • etomica.graph.engine.Parser.Command
    • etomica.graph.engine.Parser.CommandPropertyValue
    • etomica.graph.engine.Parser.CommandValue
    • etomica.graph.engine.Parser.CommandVariable
    • etomica.graph.engine.Parser.CommandVariableValue
• etomica.graph.engine.Parser.Value
• etomica.potential.Potential1.Intramolecular
• etomica.potential.PotentialCalculation
  • etomica.potential.PotentialCalculationMolecular
• etomica.mappedvirial.PotentialCalculationMappedVirialV.VFunc
• etomica.potential.PotentialPolarizable
• etomica.potential.PotentialReactive
• java.util.function.Predicate<T>
  • etomica.atom.AtomTest
    • etomica.atom.AtomTestCollective
• etomica.graph.property.Property
• etomica.meta.properties.Property
• etomica.box.RandomPositionSource
• etomica.math.geometry.Rectangular
• etomica.graph.isomorphism.SearchState
• etomica.math.geometry.Shape
• etomica.simulation.SimulationContainer
• etomica.simulation.SimulationListener
• etomica.lattice.SiteFactory
• etomica.lattice.SiteIterator
• etomica.species.SpeciesAgentManager.AgentSource<E>
• etomica.virial.SpeciesFactory
• etomica.species.SpeciesGeneral.AtomFactory
• etomica.graph.view.rasterizer.SVGConverterController
• etomica.graph.view.rasterizer.SVGConverterSource
• etomica.graph.traversal.Traversal
• etomica.graph.traversal.TraversalVisitor
• etomica.graph.operations.Unary
• etomica.units.Unit
• etomica.space.Vector
• etomica.graph.engine.Viewer
• etomica.normalmode.WaveVectorFactory

Annotation Type Hierarchy

• etomica.units.dimensions.Dimensioned (implements java.lang.annotation.Annotation)
• etomica.meta.annotations.IgnoreProperty (implements java.lang.annotation.Annotation)
• etomica.meta.javadoc.KeepSimJavadoc (implements java.lang.annotation.Annotation)

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • etomica.modules.glass.ConfigurationStorage.StorageType
    • etomica.util.Constants.CompassDirection
    • etomica.modules.glass.CorrelationSelf2.CorrelationType
    • etomica.data.DataSourceUniform.LimitType
    • etomica.graphics.DeviceBox.LabelType
    • etomica.graphics.DisplayTextBox.LabelType
    • org.jmol.constant.EnumPalette
    • etomica.virial.GUI.models.EnumPotentialParamDescription
    • etomica.virial.GUI.models.EnumSiteName
    • org.jmol.constant.EnumStereoMode
    • org.jmol.constant.EnumVdw
    • etomica.integrator.IntegratorMD.ThermostatType
    • etomica.potential.IteratorDirective.Direction
    • etomica.modules.glass.MeterCorrelation.CorrelationType
    • etomica.modules.glass.MeterCorrelationSelf.CorrelationType
    • etomica.models.co2.P2CO2Hellmann.Parameters
    • etomica.cavity.P2HardSphereCavity.CollisionType
    • etomica.models.water.P2WaterSzalewicz.Component
    • etomica.parser.ParserLAMMPS.Truncation
    • etomica.models.co2.PNCO2GCPM.Component
    • etomica.models.co2.PNGCPM.Component
    • etomica.models.water.PNWaterGCPM.Component
    • etomica.units.Prefix
    • etomica.modules.glass.SimGlass.PotentialChoice
    • etomica.server.representations.StatusAction.Status
    • etomica.virial.simulations.VirialHePI.FlexApproach
    • etomica.virial.simulations.VirialHePI.PotentialChoice
    • etomica.virial.simulations.VirialHePISysErr.FlexApproach
    • etomica.virial.simulations.VirialHSOrC.PotentialChoice
    • etomica.virial.simulations.VirialLJOrC.PotentialChoice