List < Atom [ ] > function ( final Group arg0 , final Group arg1 , final boolean arg2 , final double arg3 ) { return findAtomLinkages ( arg0 , arg1 , null , null , arg2 , arg3 ) ; }
find linkages between two groups within tolerance of bond length , from potential atoms . concode_field_sep PlaceHolder placeHolder concode_field_sep List<String> getAtomNames concode_elem_sep List<Group> getAminoAcids concode_elem_sep double getAtomDistance concode_elem_sep StructureGroup getStructureGroup concode_elem_sep Atom[] findNearestAtomLinkage concode_elem_sep StructureAtom getStructureAtom concode_elem_sep StructureAtomLinkage getStructureAtomLinkage concode_elem_sep Atom[] findLinkage