int atomIdx = 0; for (IAtom atom : atoms) { final int elem = nullAsZero(atom.getAtomicNumber()); final int chg = nullAsZero(atom.getFormalCharge()); final int mass = nullAsZero(atom.getMassNumber()); final int hcnt = nullAsZero(atom.getImplicitHydrogenCount()); final int elec = mol.getConnectedSingleElectronsCount(atom); int rad = 0; writer.write(nullAsZero(atom.getProperty(ATOM_ATOM_MAPPING, Integer.class)));