org.biojava.nbio.aaproperties.xml.ElementTable Maven / Gradle / Ivy
/*
* 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.aaproperties.xml;
import javax.xml.bind.annotation.XmlRootElement;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
@XmlRootElement(name="elements", namespace="http://biojava.org")
public class ElementTable {
/**
* Contain the full list of elements
*/
private List element;
/**
* Enable quick retrieval of Element from its name
*/
private Map elementName2Element;
/**
* Enable quick retrieval of Isotop from its name
*/
private Map isotopeName2Isotope;
public ElementTable(){}
public ElementTable(List eList){
this.setElement(eList);
}
public void setElement(List eList){
this.element = eList;
populateMaps();
}
/**
* Populate the Maps for quick retrieval
*/
public void populateMaps(){
this.elementName2Element = new HashMap();
this.isotopeName2Isotope = new HashMap();
if(this.element != null){
for(Element e:this.element){
this.elementName2Element.put(e.getName(), e);
if(e.getIsotopes() != null){
for(Isotope i:e.getIsotopes()){
this.isotopeName2Isotope.put(i.getName(), i);
}
}
}
}
}
public List getElement(){
return this.element;
}
public Element getElement(String name){
return this.elementName2Element.get(name);
}
public Isotope getIsotope(String name){
return this.isotopeName2Isotope.get(name);
}
}