Uses of Package
ffx.utilities

Packages that use ffx.utilities

Package	Description
ffx.algorithms.cli	The Algorithms CLI package defines options for PicoCLI command line scripts.
ffx.algorithms.misc	The Misc package contains a few miscellaneous algorithms.
ffx.crystal	The Crystal package implements space group symmetry and periodic boundary condition support.
ffx.potential	The Potential package implements molecular mechanics force fields with shared memory Parallel Java and via OpenMM.
ffx.potential.cli	The Potential CLI package defines reusable options for PicoCLI command line scripts.
ffx.potential.commands
ffx.potential.nonbonded	The Nonbonded package implements nonbonded molecular mechanics terms such as van der Waals and Particle Mesh Ewald electrostastics.
ffx.potential.nonbonded.pme
ffx.potential.parameters	The Parameters package stores force field atom types, bond types, etc, and keywords that define the potential.
ffx.potential.parsers	The Parsers package handles reading/writing files to/from the internal data structure.
ffx.potential.utils	The Utils package implements core functionality needed for using the Potential package, such as opening and closing structure files, basic force field energy evaluations, etc.
ffx.ui	The UI package provides views and controllers for manipulating molecular systems.
ffx.utilities	The Utilities package implements a variety of useful Directory, File, Port, String, etc functionality.
ffx.xray.cli	The X-ray CLI package defines options for PicoCLI command line scripts.

Classes in ffx.utilities used by ffx.algorithms.cli

Class	Description
FFXScript	BaseScript class.

Classes in ffx.utilities used by ffx.algorithms.misc

Class	Description
FFXTest	The FFXTest configures the context for FFX tests.

Classes in ffx.utilities used by ffx.crystal

Class	Description
FFXProperty	The FFXProperty Annotation should be used to document fields that are set using property files, keyword files, force field parameter files and the Java property system.

Classes in ffx.utilities used by ffx.potential

Class	Description
FFXProperty	The FFXProperty Annotation should be used to document fields that are set using property files, keyword files, force field parameter files and the Java property system.

Classes in ffx.utilities used by ffx.potential.cli

Class	Description
FFXCommand	Base Command class.
FFXContext	This represents the context of an FFX MolecularAssembly.
FFXScript	BaseScript class.

Classes in ffx.utilities used by ffx.potential.commands

Class	Description
FFXCommand	Base Command class.
FFXContext	This represents the context of an FFX MolecularAssembly.

Classes in ffx.utilities used by ffx.potential.nonbonded

Class	Description
FFXProperty	The FFXProperty Annotation should be used to document fields that are set using property files, keyword files, force field parameter files and the Java property system.

Classes in ffx.utilities used by ffx.potential.nonbonded.pme

Class	Description
FFXProperties	The FFXProperty Annotation can be applied multiple times to some classes.
FFXProperty	The FFXProperty Annotation should be used to document fields that are set using property files, keyword files, force field parameter files and the Java property system.

Classes in ffx.utilities used by ffx.potential.parameters

Class	Description
FFXProperties	The FFXProperty Annotation can be applied multiple times to some classes.
FFXProperty	The FFXProperty Annotation should be used to document fields that are set using property files, keyword files, force field parameter files and the Java property system.

Classes in ffx.utilities used by ffx.potential.parsers

Class	Description
Keyword	The Keyword class holds a single Force Field X keyword entry.

Classes in ffx.utilities used by ffx.potential.utils

Class	Description
FFXTest	The FFXTest configures the context for FFX tests.

Classes in ffx.utilities used by ffx.ui

Class	Description
Keyword	The Keyword class holds a single Force Field X keyword entry.

Classes in ffx.utilities used by ffx.utilities

Class	Description
DoubleIndexPair	DoubleIndexPair record.
FFXCommand	Base Command class.
FFXContext	This represents the context of an FFX MolecularAssembly.
FFXScript	BaseScript class.
ObjectPair	ObjectPair record.
PropertyGroup	The Keyword Group for an FFX Keyword.

Classes in ffx.utilities used by ffx.xray.cli

Class	Description
FFXProperty	The FFXProperty Annotation should be used to document fields that are set using property files, keyword files, force field parameter files and the Java property system.