/*
 *                    BioJava development code
 *
 * This code may be freely distributed and modified under the
 * terms of the GNU Lesser General Public Licence.  This should
 * be distributed with the code.  If you do not have a copy,
 * see:
 *
 *      http://www.gnu.org/copyleft/lesser.html
 *
 * Copyright for this code is held jointly by the individual
 * authors.  These should be listed in @author doc comments.
 *
 * For more information on the BioJava project and its aims,
 * or to join the biojava-l mailing list, visit the home page
 * at:
 *
 *      http://www.biojava.org/
 *
 */
package org.biojava.nbio.core.search.io;

import java.util.HashMap;
import java.util.Iterator;
import java.util.List;
import java.util.Set;
import java.util.NoSuchElementException;

import org.biojava.nbio.core.sequence.template.Sequence;

/**
 * This class models a search result.
 * You will find one of this for every query sequence specified in the run.
 *
 * Designed by Paolo Pavan.
 * You may want to find my contacts on Github and LinkedIn for code info
 * or discuss major changes.
 * https://github.com/paolopavan
 *
 * @author Paolo Pavan
 */

public abstract class Result implements Iterable<Hit>{
        private String program;
        private String version;
        private String reference;
        private String dbFile;

        private HashMap<String,String> programSpecificParameters;

        private int iterationNumber;
        private String queryID;
        private String queryDef;
        private int queryLength;
        private Sequence querySequence;
        private List<Hit> hits;
        private int hitCounter = -1;

        public Result(String program, String version, String reference, String dbFile, HashMap<String, String> programSpecificParameters, int iterationNumber, String queryID, String queryDef, int queryLength, List<Hit> hits, Sequence querySequence) {
                this.program = program;
                this.version = version;
                this.reference = reference;
                this.dbFile = dbFile;
                this.programSpecificParameters = programSpecificParameters;
                this.iterationNumber = iterationNumber;
                this.queryID = queryID;
                this.queryDef = queryDef;
                this.queryLength = queryLength;
                this.hits = hits;
                this.querySequence = querySequence;
        }

        @Override
        public int hashCode() {
                int hash = 7;
                hash = 29 * hash + (this.queryID != null ? this.queryID.hashCode() : 0);
                hash = 29 * hash + (this.queryDef != null ? this.queryDef.hashCode() : 0);
                hash = 29 * hash + (this.hits != null ? this.hits.hashCode() : 0);
                return hash;
        }
        /**
         * Experimental.
         * Wants to return an hashcode designed to allow conceptual comparisons of search results.
         * Wants to implement conceptual comparisons of search results.
         * Fields unrelated to search are deliberately not considered.
         * @return
         */
        @Override
        public boolean equals(Object obj) {
                if (obj == null) {
                        return false;
                }
                if (getClass() != obj.getClass()) {
                        return false;
                }
                final Result other = (Result) obj;
                if ((this.queryID == null) ? (other.queryID != null) : !this.queryID.equals(other.queryID)) {
                        return false;
                }
                if ((this.queryDef == null) ? (other.queryDef != null) : !this.queryDef.equals(other.queryDef)) {
                        return false;
                }
                if (this.hits != other.hits && (this.hits == null || !this.hits.equals(other.hits))) {
                        return false;
                }
                return true;
        }

        public int getIterationNumber() {
                return iterationNumber;
        }

        public String getQueryID() {
                return queryID;
        }

        public String getQueryDef() {
                return queryDef;
        }

        public int getQueryLength() {
                return queryLength;
        }

        public int getHitCounter() {
                return hitCounter;
        }

        public String getProgram() {
                return program;
        }

        public String getVersion() {
                return version;
        }

        public String getReference() {
                return reference;
        }

        public String getDbFile() {
                return dbFile;
        }

        public Set<String> getProgramSpecificParametersList() {
                return programSpecificParameters.keySet();
        }

        public String getProgramSpecificParameter(String key) {
                return programSpecificParameters.get(key);
        }
        /**
         * returns the reference to the original and whole sequence used to query the database.
         * Available only if the ResultFactory implements setQueryReferences and
         * it was used before the parsing with SearchIO
         * @return Sequence object
         */
        public Sequence getQuerySequence() {
                return querySequence;
        }

        @Override
        public Iterator<Hit> iterator() {
                return new Iterator<Hit>() {
                        int currentResult = 0;
                        @Override
                        public boolean hasNext() {
                                return currentResult < hits.size();
                        }

                        @Override
                        public Hit next() {
                if(!hasNext()){
                    throw new NoSuchElementException();
                }
                return hits.get(currentResult++);
                        }

                        @Override
                        public void remove() {
                                throw new UnsupportedOperationException("The remove operation is not supported by this iterator");
                        }
                };
        }
}