Uses of Class org.jmol.smiles.SmilesAtom (Jmol 16.3.55 API)

Packages that use SmilesAtom

Package

Description

org.jmol.smiles

Jmol SMILES, Jmol SMARTS, Jmol bioSMILES, and Jmol bioSMARTS

Uses of SmilesAtom in org.jmol.smiles

Methods in org.jmol.smiles that return SmilesAtom

Modifier and Type

Method

Description

SmilesAtom

SmilesBond.getAtom1()

SmilesAtom

SmilesBond.getOtherAtom(SmilesAtom a)

SmilesAtom

SmilesAtom.setIndex(int index)

Constructs a SmilesAtom.

SmilesAtom

SmilesAtom.setTopoAtom(int iComponent, int ptAtom, String symbol, int charge, int patternIndex)

Methods in org.jmol.smiles with parameters of type SmilesAtom

Modifier and Type

Method

Description

int

SmilesStereo.checkStereoForAtom(SmilesAtom pAtom, boolean isNot, boolean haveTopo)

Node[]

SmilesStereo.getAlleneAtoms(boolean haveTopo, SmilesAtom sAtom0, SmilesAtom pAtom, SmilesAtom pAtom1)

int

SmilesStereo.getChiralClass(SmilesAtom sAtom)

SmilesAtom

SmilesBond.getOtherAtom(SmilesAtom a)

boolean

SmilesStereo.setTopoCoordinates(SmilesAtom sAtom0, SmilesAtom pAtom, SmilesAtom sAtom2, Node[] cAtoms, boolean isNot)

Constructors in org.jmol.smiles with parameters of type SmilesAtom

Modifier

Constructor

Description

SmilesBond(SmilesAtom atom1, SmilesAtom atom2, int bondType, boolean isNot)

SmilesBond constructor