Uses of Class
ffx.potential.bonded.RotamerLibrary

Packages that use RotamerLibrary

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.algorithms.optimize	The Optimize package contains local and global optimization algorithms using pure Java and OpenMM code paths.
ffx.potential.bonded	The Bonded package implements bonded molecular mechanics terms such as bonds, angles, torsions, etc.

Uses of RotamerLibrary in ffx.algorithms.cli

Methods in ffx.algorithms.cli that return RotamerLibrary

Modifier and Type	Method	Description
RotamerLibrary	ManyBodyOptions.getRotamerLibrary(boolean reinit)

Uses of RotamerLibrary in ffx.algorithms.misc

Constructors in ffx.algorithms.misc with parameters of type RotamerLibrary

Modifier	Constructor	Description
	GenerateRotamers(MolecularAssembly molecularAssembly, Potential potential, Residue residue, File file, int nChi, AlgorithmListener listener, RotamerLibrary library)	Intended to create rotamer sets for nonstandard amino acids.

Uses of RotamerLibrary in ffx.algorithms.optimize

Fields in ffx.algorithms.optimize declared as RotamerLibrary

Modifier and Type	Field	Description
protected RotamerLibrary	RotamerOptimization.library	RotamerLibrary instance.

Methods in ffx.algorithms.optimize with parameters of type RotamerLibrary

Modifier and Type	Method	Description
void	RotamerOptimization.setRotamerLibrary(RotamerLibrary lib)

Uses of RotamerLibrary in ffx.potential.bonded

Methods in ffx.potential.bonded that return RotamerLibrary

Modifier and Type	Method	Description
static RotamerLibrary	RotamerLibrary.getDefaultLibrary()	getDefaultLibrary.

Methods in ffx.potential.bonded with parameters of type RotamerLibrary

Modifier and Type	Method	Description
Rotamer[]	MultiResidue.setRotamers(RotamerLibrary library)	Resets the rotamers for this residue, potentially incorporating the original coordinates if RotamerLibrary's original coordinates rotamer flag has been set.
Rotamer[]	Residue.setRotamers(RotamerLibrary library)	Resets the rotamers for this residue, potentially incorporating the original coordinates if RotamerLibrary's original coordinates rotamer flag has been set.