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Searched refs:cyclicAtomList (Results 1 – 2 of 2) sorted by relevance

/dports/science/opsin/dan2097-opsin-9b25f7546b67/opsin-core/src/main/java/uk/ac/cam/ch/wwmm/opsin/
H A DRing.java18 private List<Atom> cyclicAtomList; field in Ring
82 return cyclicAtomList; in getCyclicAtomList()
108 cyclicAtomList = new ArrayList<Atom>(); in makeCyclicLists()
112 cyclicAtomList.add(atom); in makeCyclicLists()
122 cyclicAtomList.add(atom); in makeCyclicLists()
127 cyclicAtomList.add(atom); in makeCyclicLists()
H A DFusedRingBuilder.java626 CyclicAtomList cyclicAtomList = new CyclicAtomList(ring.getAtomList()); in findPossibleLetterLocants() local
631 Atom atom = cyclicAtomList.previous(); in findPossibleLetterLocants()
634 …&& (carbonAtomIndexes.size() == 0 || atom.getAtomNeighbours().contains(cyclicAtomList.peekNext()))… in findPossibleLetterLocants()
635 carbonAtomIndexes.add(cyclicAtomList.getIndex()); in findPossibleLetterLocants()
663 CyclicAtomList cyclicAtomList = new CyclicAtomList(ring.getAtomList()); in findPossibleNumericalLocants() local
666 Atom atom = cyclicAtomList.next(); in findPossibleNumericalLocants()
669 …&& (carbonLocants.size() == 0 || atom.getAtomNeighbours().contains(cyclicAtomList.peekPrevious()))… in findPossibleNumericalLocants()