content: /*
   * Copyright (c) 1997 - 2016
   * Actelion Pharmaceuticals Ltd.
   * Gewerbestrasse 16
   * CH-4123 Allschwil, Switzerland
   *
   * All rights reserved.
   *
   * Redistribution and use in source and binary forms, with or without
   * modification, are permitted provided that the following conditions are met:
   *
   * 1. Redistributions of source code must retain the above copyright notice, this
   *    list of conditions and the following disclaimer.
   * 2. Redistributions in binary form must reproduce the above copyright notice,
   *    this list of conditions and the following disclaimer in the documentation
   *    and/or other materials provided with the distribution.
   * 3. Neither the name of the the copyright holder nor the
   *    names of its contributors may be used to endorse or promote products
   *    derived from this software without specific prior written permission.
   *
   * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
   * ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
   * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
   * DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
   * ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
   * (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
   * LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
   * ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
   * (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
   * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
   *
   * @author Modest v. Korff
   */
  
  package com.actelion.research.chem.descriptor.flexophore.entity;
  
  import com.actelion.research.util.datamodel.ByteVec;
  import com.actelion.research.util.datamodel.IntArray;
  
  /**
   * 
   * Linker
   * @author Modest von Korff
   * @version 1.0
   * Jan 15, 2013 MvK Start implementation
   */
  public class Linker {
  	
  	private static final int CAPACITY_ATOMINDEX = 12;
  	
  	private int id;
  	
  	private byte [] arrDistanceHistogram;
  	
  	private String idcode;
  	
  	private IntArray iaOriginalAtomIndex;
  	
  	private int idFlexophorePoint1;
  	
  	private int idFlexophorePoint2;
  	
  	private int hash;
  	
  	public Linker(int id) {
  		this.id = id;
  		
  		hash = -1;
  		iaOriginalAtomIndex = new IntArray(CAPACITY_ATOMINDEX);
  	}
  	
  	
  	public void calculateHashCode() {
  		
  		if(arrDistanceHistogram == null || idcode==null){
  			hash=-1;
  			return;
  		}
  		
  		int hashHist = ByteVec.getHashCode(arrDistanceHistogram);
  		
  		int hashIdCode = idcode.hashCode();
  		
  		hash = hashHist ^  hashIdCode;
  	}
  	
  	/**
  	 * @return the id
  	 */
  	public int getId() {
  		return id;
  	}
  
  	public int hashCode() {
  		
  		return hash;
  	}
  
  	public void addOriginalAtomIndex(int atomIndex){
  		iaOriginalAtomIndex.add(atomIndex);
  	}
  	
  	public void addOriginalAtomIndex(int [] arrAtomIndex){
  		iaOriginalAtomIndex.add(arrAtomIndex);
  	}
  	
  	
  	public int [] getOriginalAtomIndex(){
  		return iaOriginalAtomIndex.get();
  	}
  
  	/**
  	 * @return the arrDistanceHistogram
  	 */
  	public byte[] getDistanceHistogram() {
  		return arrDistanceHistogram;
  	}
  
  
  	/**
  	 * @param arrDistanceHistogram the arrDistanceHistogram to set
  	 */
  	public void setDistanceHistogram(byte[] arrDistanceHistogram) {
  		this.arrDistanceHistogram = arrDistanceHistogram;
  		calculateHashCode();
  	}
  
  
  	/**
  	 * @return the idcode
  	 */
  	public String getIdCode() {
  		return idcode;
  	}
  
  
  	/**
  	 * @param idcode the idcode to set
  	 */
  	public void setIdCode(String idcode) {
  		this.idcode = idcode;
  		calculateHashCode();
  	}
  	
  	
  	public boolean equals(Object obj) {
  		boolean equal = true;
  		
  		if(!(obj instanceof Linker)){
  			return false;
  		}
  		
  		Linker l = (Linker)obj;
  		
  		if((arrDistanceHistogram == null) && (l.arrDistanceHistogram != null)){
  			return false;
  		} else if((arrDistanceHistogram != null) && (l.arrDistanceHistogram == null)){
  			return false;
  		} else if((idcode == null) && (l.idcode != null)){
  			return false;
  		} else if((idcode != null) && (l.idcode == null)){
  			return false;
  		} 
  		
  		if(arrDistanceHistogram != null){
  			
  			if(l.arrDistanceHistogram != null){
  				
  				if(arrDistanceHistogram.length == l.arrDistanceHistogram.length) {
  					
  					for (int i = 0; i < arrDistanceHistogram.length; i++) {
  						if(arrDistanceHistogram[i] != l.arrDistanceHistogram[i]){
  							equal = false;
  							break;
  						}
  					}
  				}
  			}
  		}
  		
  		if(idcode != null){
  			if(l.idcode != null){
  				if(!idcode.equals(l.idcode)){
  					equal = false;
  				}
  			}
  		}
  		
  		return equal;
  	}
  	
  	/**
  	 * @return the idFlexophorePoint1
  	 */
  	public int getIdFlexophorePoint1() {
  		return idFlexophorePoint1;
  	}
  
  
  	/**
  	 * @param idFlexophorePoint1 the idFlexophorePoint1 to set
  	 */
  	public void setIdFlexophorePoint1(int idFlexophorePoint1) {
  		this.idFlexophorePoint1 = idFlexophorePoint1;
  	}
  
  
  	/**
  	 * @return the idFlexophorePoint2
  	 */
  	public int getIdFlexophorePoint2() {
  		return idFlexophorePoint2;
  	}
  
  
  	/**
  	 * @param idFlexophorePoint2 the idFlexophorePoint2 to set
  	 */
  	public void setIdFlexophorePoint2(int idFlexophorePoint2) {
  		this.idFlexophorePoint2 = idFlexophorePoint2;
  	}
  
  	
  
  }