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/* Copyright (C) 2007  Egon Willighagen
 *
 * Contact: [email protected]
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU Lesser General Public License
 * as published by the Free Software Foundation; either version 2.1
 * of the License, or (at your option) any later version.
 * All we ask is that proper credit is given for our work, which includes
 * - but is not limited to - adding the above copyright notice to the beginning
 * of your source code files, and to any copyright notice that you may distribute
 * with programs based on this work.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU Lesser General Public License for more details.
 *
 * You should have received a copy of the GNU Lesser General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA.
 */
package org.openscience.cdk.tools;

import java.util.Hashtable;
import java.util.Map;

import org.openscience.cdk.CDKConstants;
import org.openscience.cdk.config.AtomTypeFactory;
import org.openscience.cdk.exception.CDKException;
import org.openscience.cdk.interfaces.IAtom;
import org.openscience.cdk.interfaces.IAtomContainer;
import org.openscience.cdk.interfaces.IAtomType;
import org.openscience.cdk.interfaces.IBond;
import org.openscience.cdk.interfaces.IChemObjectBuilder;

/**
 * Assumes CDK atom types to be detected and adds missing hydrogens based on the
 * atom typing.
 *
 * @author     egonw
 * @cdk.module valencycheck
 * @cdk.githash
 */
public class CDKValencyChecker implements IValencyChecker {

    private AtomTypeFactory                       atomTypeList;
    private final static String                   ATOM_TYPE_LIST = "org/openscience/cdk/dict/data/cdk-atom-types.owl";

    private static Map tables         = new Hashtable(3);

    private CDKValencyChecker(IChemObjectBuilder builder) {
        if (atomTypeList == null) atomTypeList = AtomTypeFactory.getInstance(ATOM_TYPE_LIST, builder);
    }

    public static CDKValencyChecker getInstance(IChemObjectBuilder builder) {
        if (!tables.containsKey(builder.getClass().getName()))
            tables.put(builder.getClass().getName(), new CDKValencyChecker(builder));
        return tables.get(builder.getClass().getName());
    }

    @Override
    public boolean isSaturated(IAtomContainer atomContainer) throws CDKException {
        for (IAtom atom : atomContainer.atoms()) {
            if (!isSaturated(atom, atomContainer)) return false;
        }
        return true;
    }

    @Override
    public boolean isSaturated(IAtom atom, IAtomContainer container) throws CDKException {
        System.out.println(atom.getAtomTypeName());
        IAtomType type = atomTypeList.getAtomType(atom.getAtomTypeName());
        if (type == null)
            throw new CDKException("Atom type is not a recognized CDK atom type: " + atom.getAtomTypeName());

        if (type.getFormalNeighbourCount() == CDKConstants.UNSET)
            throw new CDKException(
                    "Atom tfindAndConfigureAtomTypesForAllAtomsype is too general; cannot decide the number of implicit hydrogen to add for: "
                            + atom.getAtomTypeName());

        if (type.getProperty(CDKConstants.PI_BOND_COUNT) == CDKConstants.UNSET)
            throw new CDKException("Atom type is too general; cannot determine the number of pi bonds for: "
                    + atom.getAtomTypeName());

        double bondOrderSum = container.getBondOrderSum(atom);
        IBond.Order maxBondOrder = container.getMaximumBondOrder(atom);
        Integer hcount = atom.getImplicitHydrogenCount() == CDKConstants.UNSET ? 0 : atom.getImplicitHydrogenCount();

        int piBondCount = ((Integer) type.getProperty(CDKConstants.PI_BOND_COUNT)).intValue();
        int formalNeighborCount = type.getFormalNeighbourCount().intValue();

        int typeMaxBondOrder = piBondCount + 1;
        int typeBondOrderSum = formalNeighborCount + piBondCount;

        if (bondOrderSum + hcount == typeBondOrderSum && maxBondOrder.numeric() <= typeMaxBondOrder) {
            return true;
        }
        return false;
    }

}