This is the complete list of members for denoptim.molecularmodeling.ChemicalObjectModel, including all inherited members.

addBond(IAtom atmA, IAtom atmB, RingClosure nRc, BondType bndTyp)	denoptim.molecularmodeling.ChemicalObjectModel
allRCACombs	denoptim.molecularmodeling.ChemicalObjectModel	private
atmOveralScore	denoptim.molecularmodeling.ChemicalObjectModel	private
attractors	denoptim.molecularmodeling.ChemicalObjectModel	private
attToAtmID	denoptim.molecularmodeling.ChemicalObjectModel	private
ChemicalObjectModel(DGraph molGraph, IAtomContainer fmol, ZMatrix zmat, String molName, List< ObjectPair > rotatableBnds, List< RingClosingAttractor > attractors, Map< RingClosingAttractor, Integer > attToAtmID, List< Set< ObjectPair > > allRCACombs, List< RingClosure > ringClosures, List< Integer > oldToNewOrder, List< Integer > newToOldOrder, Logger logger)	denoptim.molecularmodeling.ChemicalObjectModel
ChemicalObjectModel(DGraph molGraph, IAtomContainer fmol, ZMatrix zmat, String molName, List< ObjectPair > rotatableBnds, List< Integer > oldToNewOrder, List< Integer > newToOldOrder, Logger logger)	denoptim.molecularmodeling.ChemicalObjectModel
convertRingsToRCACombinations()	denoptim.molecularmodeling.ChemicalObjectModel	private
deepcopy()	denoptim.molecularmodeling.ChemicalObjectModel
findAttractors()	denoptim.molecularmodeling.ChemicalObjectModel	private
fmol	denoptim.molecularmodeling.ChemicalObjectModel	private
getAtomOverlapScore()	denoptim.molecularmodeling.ChemicalObjectModel
getAttractor(int i)	denoptim.molecularmodeling.ChemicalObjectModel
getAttractorsList()	denoptim.molecularmodeling.ChemicalObjectModel
getGraph()	denoptim.molecularmodeling.ChemicalObjectModel
getIAtomContainer()	denoptim.molecularmodeling.ChemicalObjectModel
getName()	denoptim.molecularmodeling.ChemicalObjectModel
getNewRingClosures()	denoptim.molecularmodeling.ChemicalObjectModel
getNewRingClosuresQuality()	denoptim.molecularmodeling.ChemicalObjectModel
getNewToOldOrder()	denoptim.molecularmodeling.ChemicalObjectModel
getNumberRotatableBonds()	denoptim.molecularmodeling.ChemicalObjectModel
getOldToNewOrder()	denoptim.molecularmodeling.ChemicalObjectModel
getRCACombinations()	denoptim.molecularmodeling.ChemicalObjectModel
getRotatableBonds()	denoptim.molecularmodeling.ChemicalObjectModel
getZMatIdxOfRCA(RingClosingAttractor rca)	denoptim.molecularmodeling.ChemicalObjectModel
getZMatIdxOfRCASrc(RingClosingAttractor rca)	denoptim.molecularmodeling.ChemicalObjectModel
getZMatrix()	denoptim.molecularmodeling.ChemicalObjectModel
logger	denoptim.molecularmodeling.ChemicalObjectModel	private
molGraph	denoptim.molecularmodeling.ChemicalObjectModel	private
molName	denoptim.molecularmodeling.ChemicalObjectModel	private
newRingClosures	denoptim.molecularmodeling.ChemicalObjectModel	private
newToOldOrder	denoptim.molecularmodeling.ChemicalObjectModel	private
oldToNewOrder	denoptim.molecularmodeling.ChemicalObjectModel	private
overalRCScore	denoptim.molecularmodeling.ChemicalObjectModel	private
purgeListRotatableBonds()	denoptim.molecularmodeling.ChemicalObjectModel
rotatableBnds	denoptim.molecularmodeling.ChemicalObjectModel	private
updateXYZ(List< Point3d > newCoords)	denoptim.molecularmodeling.ChemicalObjectModel
updateXYZFromINT()	denoptim.molecularmodeling.ChemicalObjectModel
zmat	denoptim.molecularmodeling.ChemicalObjectModel	private