javaで実行させながらパラメータ調整

コマンドプロンプトで
$ javac aiProcessMass_e.java
でクラスファイル生成
$appletviewer aiProcessMass_e.java
で実行

実行イメージ↓

/*
*  created 2007/11/24
*/
//last modified 2007/12/18


import java.awt.*;
import java.awt.event.*;
import java.applet.*;

/*
//コピペするならかっこを半角にすること
＜applet code="aiProcess_e.class" height="700" width="1200"＞
＜/applet＞

*/

public class aiProcess_e extends Applet implements  ActionListener, Runnable  {

 Thread thread = null;

 ///*for event*/
 Button bt_reset, bt_startStop;
 int resetSW = 0; //1-reset
 int startSW = 1; //0-stop, 1-start

 int num=1000000;               // メイン関数の中の関数群実行回数上限

 static int max_trna = 210;          // trna1,trna2に関する配列の最大要素数
 int num_trna_division = 200;  // trna数がこれ以上になると分裂する
 int num_trna_percell  = 100;  // 分裂時の1細胞あたりのtrnaの数
 double mutate_rate = 0.1;       // trna集団のうちいくつ変異させるか：0～1で指定

 ///*initialization parameters*/
 double init_trna1r =  20.0;//tRNA1の認識範囲
 double init_trna1p =  100.0;//tRNA1の重心
 double init_trna2r =  20.0;//tRNA2の認識範囲
 double init_trna2p = 150.0;//tRNA2の重心
 int init_num_trna1 = 50;//tRNA1の初期個数
 int init_num_trna2 = 50;//tRNA2の初期個数

 ///*mutation system*/
 double length = 100.0;   // trnaの長さ
 double ai  =    100.0 ;  // １以上の正の整数を指定すること
 double max  =    30.0;   // 認識範囲の変化量の絶対値の上限

 ///*deletion systems*/
 double r_max =   80.0;  //trnaの認識範囲の上限(この値以上になるとそのtrnaは消される)
 double r_min =    1.0;  //trnaの認識範囲の下限(この値以下になるとそのtrnaは消される)

 ///*animo acid availability*/
 //１回の翻訳当たりのアミノ酸の合成個数
 double aa1 =  1.0;
 double aa2 =  1.5;

 ///*codon level coordinates' paramters*/
 double basepoint  = 100.0;
 double codon1_level = 100.0;
 double gap = 50.0;
 double codon2_level = 150.0;

 /////*trna system variables*/
 //r:trna range of recognition, p:center of range
 double trna1r[] = new double[max_trna];
 double trna1p[] = new double[max_trna];
 double trna2r[] = new double[max_trna];
 double trna2p[] = new double[max_trna];
 int num_trna1, num_trna2; //それぞれtRNA1,tRNA2の数

 ///*temporal variables*/
 int mem_crossindex[] = new int[max_trna];

 ///*分裂回数*/
 int num_division;

 public void init(){
   thread = new Thread(this);
   thread.start();

   ///*locate buttons*/
   bt_reset = new Button("RESET");
   bt_reset.addActionListener(this);

   bt_startStop = new Button("START / STOP");
   bt_startStop.addActionListener(this);


  // setInitialCondition();


   ///*set layout*/
   setLayout(new BorderLayout());
   Panel pnl = new Panel();
   pnl.setLayout(new GridLayout(20,10,3,3));
   pnl.add(bt_reset);
   pnl.add(bt_startStop);
   pnl.add(new Label(" ")); //vacant space?
   add(pnl, "East");

 }

 public void actionPerformed(ActionEvent ev){
   if( ev.getSource() == bt_reset){
     resetSW = 1;
   }else if (ev.getSource() == bt_startStop){
     if(startSW == 0){
       startSW = 1;
     }else{
       startSW = 0;
     }
   }
 }


 public void paint(Graphics g){

   //getSize().widthの幅の右から70pixは、文字情報表示
   ///*set colors*/
   Color lightyellow = new Color(255,255,180);
   Color lightblue = new Color(180,255,255);
   Color blue = new Color(0,0,255);
   Color pink = new Color(255,180,255);
   Color red = new Color(255,0,0);
   Color green = new Color(0,255,0);
   Color black = new Color(0,0,0);

   //描画順にどんどん上塗りされていくことに注意する。


   ///*最初にコドン領域を描画したらいい？*/
   g.setColor(blue);
//    g.fillRect(100+1, (int)basepoint+400, getSize().width - 400, 1);//コドン認識領域を描く
   g.drawLine(100+1, (int)basepoint+400, getSize().width - 400, (int)basepoint+400);
   g.setColor(red);
 //  g.fillRect(100+1, (int)(basepoint + gap+400), getSize().width - 400, 1);//コドン認識領域を描く
   g.drawLine(100+1, (int)(basepoint+gap+400), getSize().width - 400, (int)(basepoint+gap+400) );

   //tRNAの認識範囲の軸が重なると個が見にくいので描画領域の上下でtRNAごとに作成
   g.setColor(blue);
 //  g.fillRect(100+1, (int)basepoint, getSize().width - 400, 1);//コドン認識領域を描く
   g.drawLine(100+1, (int)basepoint, getSize().width - 400, (int)basepoint);
   g.setColor(red);
 //  g.fillRect(100+1, (int)(basepoint + gap), getSize().width - 400, 1);//コドン認識領域を描く
   g.drawLine(100+1, (int)(basepoint+gap), getSize().width - 400, (int)(basepoint+gap) );


   g.setColor(black);
   g.drawLine(100, 0, 100, getSize().height );//軸を描く

   int i;

   g.setColor(red);
   for(i=0; i< num_trna1="%5d," num_trna2="%5d\n" num_trna1="%5d," num_trna2="%5d\n" num_division="0;" num_trna1 =" init_num_trna1;" num_trna2 =" init_num_trna2;" i="0;" max="" x="" length="" 0="" 1="" double="" rndd="Math.random()" trnar="" dr="0.0;" return="" public="" void="" int="" num_all="num_trna1" num_mutate="(int)(" mutate_rate="" i="0;"><>= num_trna1 ){
       rnd = rnd - num_trna1;
       System.out.println("mutation @trna2");
       trna2r[rnd] = mutate( trna2r[rnd] );
       System.out.println("\n");
       //  }else{
       //     printf("\nIn Function mutations(). Error occured.\n");
     }
   }

 }


 /////*tRNAの認識範囲が許容範囲外のものを消去する関数*******************************/
 public  void delete(){
   int i,j;

   //異常に長いor短い認識範囲のtRNAは消去
   for( i=0; i= r_min  &&  trna1r[i] <= r_max ){         continue;       }else{         //shiftseq( trna1r, num_trna1, i);         for( j=i; j= r_min  &&  trna2r[i] <= r_max ){         continue;       }else{         // shiftseq( trna2r, num_trna2, i);         for( j=i; j< j="0," num_cross_l1_trna1="0," num_cross_l1_trna2="0;" num_cross_l2_trna1="0," num_cross_l2_trna2="0;" num_all =" num_trna1" num_rep =" num_trna_division" num_level1 =" (int)" num_level2 =" num_level1;" j="0;" i="0;"><= codon1_level && trna1p[i]+trna1r[i] >= codon1_level){
       num_cross_l1_trna1++;
       mem_crossindex[j]=i;
       j++;
     }
   }
   //   num_cross_l1_trna1 = num_cross(CODON1_LEVEL, trna1r, trna1p, num_trna1);
   for (i=0; i<= codon1_level && trna2p[i]+trna2r[i] >= codon1_level){
       num_cross_l1_trna2++;
       mem_crossindex[j]=i;
       j++;
     }
   }
   //num_cross_l1_trna2 = num_cross(CODON1_LEVEL, trna2r, trna2p, num_trna2);

   num_rep1 = (double) num_cross_l1_trna1 * aa1;
   num_rep2 = (double) num_cross_l1_trna2 * aa2;

   trna1_l1_rep = (int) ( num_rep1/(num_rep1+num_rep2) * num_level1 );
   trna2_l1_rep = (int) ( num_rep2/(num_rep1+num_rep2) * num_level1 );


   temp_num_trna1 = num_trna1;
   for(i=0; i<= codon2_level && trna1p[i]+trna1r[i] >= codon2_level){
       num_cross_l2_trna1++;
       mem_crossindex[j]=i;
       j++;
     }
   }
   //num_cross_l2_trna1 = num_cross(CODON2_LEVEL, trna1r, trna1p, temp_num_trna1);
   for (i=0; i<= codon2_level && trna2p[i]+trna2r[i] >= codon2_level){
       num_cross_l2_trna2++;
       mem_crossindex[j]=i;
       j++;
     }
   }
   //num_cross_l2_trna2 = num_cross(CODON2_LEVEL, trna2r, trna2p, temp_num_trna2);

   num_rep1 = (double) num_cross_l2_trna1 * aa1;
   num_rep2 = (double) num_cross_l2_trna2 * aa2;

   trna1_l2_rep = (int) ( num_rep1/(num_rep1+num_rep2) * num_level2 );
   trna2_l2_rep = (int) ( num_rep2/(num_rep1+num_rep2) * num_level2 );

   //temp_num_trna1 = num_trna1;
   for(i=0; i 0; residue--){
     rnd = (int) ( Math.random()*( temp_num_trna1 + temp_num_trna2 ) );
     if( rnd < num_all =" num_trna1" temp_num_trna1 =" num_trna1;" temp_num_trna2 =" num_trna2;" num_trna1 =" 0;" num_trna2 =" 0;" i="0;" rnd="(int)">< i="0;" i="0;">