/***************************************
 *
 *  CodonTable.java           12/26/96
 *
 *  Atsuko Kubota and Nobuyuki Miyajima
 *  Kazusa DNA Research Inst. 
 *  e-mail: miyajima@kazusa.or.jp
 ***************************************/

import java.applet.Applet;
import java.awt.*;
import java.io.*;
import java.lang.*;
import java.util.StringTokenizer;

public class CodonTable extends Applet {
  CheckboxGroup cg;
  Fractions     fr;
  Results       rs;
  Table         ta;
  TextField     tf;
  static String  colors[], frq, put, org, chk, check;
  String         codons[], aminos[];
  static int     mark;

  /**  init() method  */
  public void init() {
    String s;

    s = getParameter("orga");
    if (s != null) chk = s;

    s = getParameter("freq");
    if (s != null) org = s;

    set1();
    set2();
    set3();
  }

  /**  set1() method  ---  Input panel */
  public void set1() {
    setFont(new Font("TimesRoman", Font.BOLD, 17));

    // TextField
    Panel p1 = new Panel();
    p1.setFont(new Font("TimesRoman", Font.PLAIN, 20));
    p1.add(new Label("Enter 3 nucleotides:  (e.g. agc)"));
    p1.add(tf = new TextField(8));
    p1.add(new Button("reset"));

    // CheckboxGroup
    CheckboxGroup cg = new CheckboxGroup();
    Checkbox c1 = new Checkbox("1. Ala", cg, false);
    Checkbox c2 = new Checkbox("2. Arg", cg, false);
    Checkbox c3 = new Checkbox("3. Asn", cg, false);
    Checkbox c4 = new Checkbox("4. Asp", cg, false);
    Checkbox c5 = new Checkbox("5. Cys", cg, false);
    Checkbox c6 = new Checkbox("6. Gln", cg, false);
    Checkbox c7 = new Checkbox("7. Glu", cg, false);
    Checkbox c8 = new Checkbox("8. Gly", cg, false);
    Checkbox c9 = new Checkbox("9. His", cg, false);
    Checkbox c10 = new Checkbox("10. Ile", cg, false);
    Checkbox c11 = new Checkbox("11. Leu", cg, false);
    Checkbox c12 = new Checkbox("12. Lys", cg, false);
    Checkbox c13 = new Checkbox("13. Met", cg, false);
    Checkbox c14 = new Checkbox("14. Phe", cg, false);
    Checkbox c15 = new Checkbox("15. Pro", cg, false);
    Checkbox c16 = new Checkbox("16. Ser", cg, false);
    Checkbox c17 = new Checkbox("17. Thr", cg, false);
    Checkbox c18 = new Checkbox("18. Trp", cg, false);
    Checkbox c19 = new Checkbox("19. Tyr", cg, false);
    Checkbox c20 = new Checkbox("20. Val", cg, false);
    Checkbox c21 = new Checkbox("21. TERM", cg, false);

    Panel p2 = new Panel();
    p2.setLayout(new GridLayout(21, 1));
    p2.add(c1);
    p2.add(c2);
    p2.add(c3);
    p2.add(c4);
    p2.add(c5);
    p2.add(c6);
    p2.add(c7);
    p2.add(c8);
    p2.add(c9);
    p2.add(c10);
    p2.add(c11);
    p2.add(c12);
    p2.add(c13);
    p2.add(c14);
    p2.add(c15);
    p2.add(c16);
    p2.add(c17);
    p2.add(c18);
    p2.add(c19);
    p2.add(c20);
    p2.add(c21);

    setLayout(new BorderLayout());
    add("North", p1);
    add("East", p2);
    add("Center", ta = new Table());
  }

  /**  set2() method  ---  colors[], aminos[], codons[]  */

  public void set2() {
    put = "rst";
    mark = 21;
    checkarea(put);

    Results rs = new Results();

    rs.clrs();
    rs.cdns();
    rs.amns();
  }

  /**  set3() method  ---  fracs[]  */
  public void set3() {
    Fractions fr = new Fractions();

    if("Universal".equals(chk)) {
      fr.frac();
    }
    if("Mitochondorial".equals(chk)) {
      fr.fnull();
    }
  }

  /**  action() method  */
  public boolean action(Event e, Object o) {
    Table ta = new Table();

    // TextField event
    if (e.target instanceof TextField) {
      TextField tf = (TextField)(e.target);
      String txt = new String(o.toString());
      if (txt.length() > 3) {
	tf.setText("only 3!");
      }
      String set = txt.toUpperCase();
      for (int i = 0; i < 64; i++) {
	StringTokenizer st = new StringTokenizer(rs.codons[i], ":");
	String cdn = st.nextToken();
	if (cdn.equals(set)) {
	  mark = Integer.parseInt(st.nextToken());
	  put = st.nextToken();
	  checkarea(put);
	  i = 0;
	  break;
	} 
      }
      return true;
    }

    /**  Checkbox event  */
    if (e.target instanceof Checkbox) {
      Checkbox cb = (Checkbox)(e.target);
      String set = (cb.getLabel()).toLowerCase();
      tf.setText("");
      StringTokenizer st = new StringTokenizer(set, ". ");
      int i = Integer.parseInt(st.nextToken());
      mark = i - 1;
      put = rs.aminos[mark];
      checkarea(put);
      return true;
    }

    /**  Button event  */
    if (e.target instanceof Button) {
      Button bt = (Button)(e.target);
      if (bt.getLabel().equals("reset")) {
	tf.setText("");
	put = "rst";
	mark = 21;
	checkarea(put);
	}
      return true;
    }
    return false;
  }

  /**  checkarea() method  */
  public void checkarea(String s) {
    check = "update";
    ta.repaint();
  }

  /**  changeorg method  */
  public void changeorg() {
    check = "change";
    put = "rst";
    mark = 21;
    checkarea(put);
    ta.repaint();
  }

}