Packages

etomica
etomica.action	Provides interfaces and classes that define elementary actions that can be performed on simulation elements.
etomica.action.activity	Collects classes that extend etomica.action.Activity, which implements Action and is an abstract class appropriate to encapsulate complex, time-consuming tasks.
etomica.api
etomica.atom	Provides classes that define and organize atoms and the information related to them.
etomica.atom.iterator	Provides interfaces and classes for iteration of Atoms.
etomica.box
etomica.chem.electrostatics	Under development; subject to significant change or removal.
etomica.chem.elements	Under development; subject to significant change or removal.
etomica.chem.models	Under development; subject to significant change or removal.
etomica.compatibility	Provides infrastructure that enables classes to specify restrictions on their use with other classes.
etomica.config	Provides classes for specifying the arrangement of atoms and molecules in space.
etomica.data	Defines structures that represent, generate, process, and output data from a simulation.
etomica.data.meter	DataSources that act on a Box.
etomica.data.types	Defines classes that encapsulate various types of data and enable casting between them.
etomica.exception	Defines exceptions for use in the etomica framework.
etomica.graphics
etomica.graphics2
etomica.integrator	Provides Integrator classes that implement different molecular simulation algorithms.
etomica.integrator.mcmove	Defines Monte Carlo trial moves that are used by the IntegratorMC class.
etomica.junit	Provides classes that define or support unit tests to check for the correct functioning of some etomica classes.
etomica.junit.atom
etomica.junit.atom.iterator	Provides classes that define or support unit tests to check for the correct functioning of the atom iterators.
etomica.junit.data
etomica.junit.data.types
etomica.junit.simulation
etomica.junit.space
etomica.lattice	Provides classes for defining regular arrays of objects (sites), typically points in space.
etomica.lattice.crystal	Defines primitives and basis points for construction of various Bravais lattices.
etomica.listener
etomica.math	Provides classes implementing some selected mathematical utilities.
etomica.math.discrete	Defines classes that provide some discrete mathematics utilities, particularly the generation of permutations and combinations.
etomica.math.geometry	Provides classes that define points, planes, and geometric shapes.
etomica.math.geometry.coordinate
etomica.math.linearalgebra	Defines classes that provide linear algebra utilities, such as eigensystem analysis and solution of linear algebraic equations.
etomica.models.water	Under development; subject to significant change or removal.
etomica.modifier	Provides classes that define adapters to permit modification of arbitrary fields in arbitrary classes.
etomica.nbr	Provides classes that implement neighbor-listing capabilities.
etomica.nbr.cell	Provides classes for organizing boxs into subcells and collecting atoms in them for cell-based neighbor iteration.
etomica.nbr.list	Provides classes that implement neighbor-listing capabilities.
etomica.nbr.site
etomica.potential
etomica.simulation
etomica.simulation.prototypes
etomica.space	Specifies abstract classes and interfaces that define the nature of the physical space in which a simulation is performed.
etomica.space1d	Implementation of space classes for a 1-dimensional space.
etomica.space2d	Implementation of space classes for a 2-dimensional space.
etomica.space3d	Implementation of space classes for a 3-dimensional space.
etomica.spaceNd
etomica.species
etomica.statmech
etomica.tests
etomica.units	Defines units and dimensions that are used for conversions during input or output.
etomica.units.systems	Provides classes that specify a system of units, such as SI, English, etc.
etomica.util	Collects miscellaneous utility classes that serve a variety of purposes.
etomica.util.numerical