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/*
 * Copyright (c) 2013 European Bioinformatics Institute (EMBL-EBI)
 *                    John May 
 *
 * 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 U
 */

package org.openscience.cdk.hash;

import org.openscience.cdk.hash.stereo.StereoEncoder;

import java.util.BitSet;

/**
 * Defines an internal super-class for AtomHashGenerators. The single required
 * method allows atom hash generators to either ignore 'suppressed' atoms or use
 * the information.
 *
 * @author John May
 * @cdk.module hash
 */
abstract class AbstractAtomHashGenerator extends AbstractHashGenerator implements AtomHashGenerator {

    /**
     * Empty BitSet for use when the 'suppressed' atoms are ignored.
     */
    final BitSet EMPTY_BITSET = new BitSet();

    public AbstractAtomHashGenerator(Pseudorandom pseudorandom) {
        super(pseudorandom);
    }

    /**
     * Internal method invoked by 'molecule' hash generators.
     *
     * @param current    the current invariants
     * @param encoder    encoder used for encoding stereo-chemistry
     * @param graph      adjacency list representation of the molecule
     * @param suppressed bit set marks vertices which are 'suppressed' (may be
     *                   ignored)
     * @return the atom hash values
     */
    abstract long[] generate(long[] current, StereoEncoder encoder, int[][] graph, Suppressed suppressed);

}