/*
 *                    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/
 *
 * Created on 15.04.2004
 * @author Andreas Prlic
 *
 */
package jalview.biojava.dasobert.dasregistry;


/** a Bean to be returned via SOAP. It takes care of the DAS -  coordinate Systems
 * @author Andreas Prlic
 */
public class DasCoordinateSystem {

    String name;
    String category;
    String organism_name;
    int ncbi_tax_id ;
    String uniqueId ;
    String version;
    String testCode;

    public DasCoordinateSystem () {
        uniqueId = "";
        name = "";
        category ="";
        organism_name = "";
        ncbi_tax_id = 0;
        version = "";
        testCode = "";
    }

    public boolean equals(DasCoordinateSystem other){
        boolean match = true;
        System.out.println("comparing " + this.toString() + " to " + other.toString());
        // URI has piority
        if ( (! uniqueId.equals("")) && ( uniqueId.equals( other.getUniqueId())))
            return true;

        if ( ncbi_tax_id != other.getNCBITaxId()) {
            System.out.println("mismatch in ncbi tax id " + ncbi_tax_id + " != " + other.getNCBITaxId());
            match = false;
        }
        if ( ! version.equals(other.getVersion() )){
            System.out.println("mismatch in version");
            match = false;
        }
        if ( ! category.equals(other.getCategory())  ) {
            System.out.println("mismatch in category");
            match = false;
        }
        if ( ! name.equals(other.getName())) {
            System.out.println("mismatch in name");
            match = false;
        }
        System.out.println(" match: " + match);

        return match;
    }

    public Object clone() {
        DasCoordinateSystem d = new DasCoordinateSystem();
        d.setTestCode(testCode);
        d.setCategory(category);
        d.setName(name);
        d.setNCBITaxId(ncbi_tax_id);
        d.setUniqueId(getUniqueId());
        d.setOrganismName(getOrganismName());
        d.setVersion(getVersion());
        return d;
    }

    public String getTestCode() {
        return testCode;
    }



    public void setTestCode(String testCode) {
        if ( testCode == null)
            testCode = "";
        this.testCode = testCode;
    }



    public void setUniqueId(String id) { uniqueId = id ;   }
    public String getUniqueId() { return uniqueId;         }

    public void setName(String n) { name = n; }
    public String getName() { return name; }

    public void setCategory(String c) { category = c;}
    public String getCategory() { return category;}

    public void setOrganismName(String t) { organism_name  =t;}
    public String getOrganismName() { return organism_name;}

    public void setNCBITaxId(int id) { ncbi_tax_id = id;}
    public int getNCBITaxId(){ return ncbi_tax_id ;}




    public String getVersion() {
        return version;
    }

    public void setVersion(String version) {
        if ( version == null)
            version = "";
        this.version = version;
    }

    public String toString() {
        String nam = name;
        if ( ! version.equals(""))
            nam += "_" + version;

	if ( organism_name.equals("") )
	    return nam+","+category ;
	else
	    return nam+","+category+"," + organism_name ;
    }

    public static DasCoordinateSystem fromString(String rawString) {
	String[] spl = rawString.split(",");
	DasCoordinateSystem dcs = new DasCoordinateSystem();
	if ( spl.length == 2 ) {
	    dcs.setName(spl[0]);
	    dcs.setCategory(spl[1]);
	}
	if ( spl.length == 3 ) {
	    dcs.setName(spl[0]);
	    dcs.setCategory(spl[1]);
	    dcs.setOrganismName(spl[2]);
	}
	return dcs;
    }


}