updated getAliveNeighbours so that it works on the borders

src/backend/Simulator.java

@@ -22,14 +22,15 @@ public class Simulator extends Thread {
 	
 	private ArrayList<Agent> agents;
 	private ArrayList<ArrayList<Cell>> cells;
-	private ArrayList<ArrayList<Integer>> newCells;
+	private ArrayList<ArrayList<Cell>> newCells;
 
 	private boolean stopFlag;
 	private boolean pauseFlag;
 	private boolean loopingBorder;
 	private boolean clickActionFlag;
 	private int loopDelay = 150;
-
+	
+	//Rules rule = new Rules();
 	//TODO : add missing attribute(s)
 
 	public Simulator(MyInterface mjfParam) {
@@ -39,7 +40,7 @@ public class Simulator extends Thread {
 		loopingBorder=false;
 		clickActionFlag=false;
 		cells = new ArrayList<ArrayList<Cell>>();
-		newCells = new ArrayList<ArrayList<Integer>>();
+		newCells = new ArrayList<ArrayList<Cell>>();
 
 		agents = new ArrayList<Agent>();
 		fieldBirthValues = new ArrayList<Integer>();
@@ -58,10 +59,11 @@ public class Simulator extends Thread {
 		}
 		
 		for(int x=0; x <= getWidth();x++) {
-			ArrayList<Integer> arrayNewCell = new ArrayList<Integer>();	//initialize first dimension with ArrayLists
+			ArrayList<Cell> arrayNewCell = new ArrayList<Cell>();	//initialize first dimension with ArrayLists
 			newCells.add(arrayNewCell);
 			for(int y=0; y <= getHeight(); y++) {
-				newCells.get(x).add(0);		//assign dead cell to its position in second dimension array
+				Cell newCell = new Cell(0);		//create a dead cell
+				newCells.get(x).add(newCell);		//assign dead cell to its position in second dimension array
 			}
 		}
 		
@@ -113,33 +115,38 @@ public class Simulator extends Thread {
 		int aliveNeighbors = getAliveNeighbors(x, y, LIFE_AREA_RADIUS);
 		
 		if(aliveNeighbors < 2 || aliveNeighbors > 3) {
-			//setNewCell(x, y, 0);
-			newCells.get(x).set(y, 0);
-			}
+			setNewCell(x, y, 0);
+			//newCells.get(x).set(y, 0);
+			}else{setNewCell(x, y, 1);}
 		}
 	
 	public void cellBorns(int x, int y) {
 		int aliveNeighbors = getAliveNeighbors(x, y, LIFE_AREA_RADIUS);
 		
 		if(aliveNeighbors == 3) {
-			//setNewCell(x, y, 1);
-			newCells.get(x).set(y, 1);
-		}
+			setNewCell(x, y, 1);
+			//newCells.get(x).set(y, 1);
+		}else{setNewCell(x, y, 0);}
 	}
 	
 	public int getAliveNeighbors(int x, int y, int radius) {
+		
+		//to compensate for the cell itself being alive or not
 		int aliveNeighbors = -1;
 		if(getCell(x,y) == 0) {
-			aliveNeighbors++;
+			aliveNeighbors++; 
 		}
 		
 		
 		//for each neighbor
 		for(int i = x-radius; i <= x+radius; i++) {
 			for(int j = y-radius; j <= y+radius; j++) {
-					if(getCell(i,j) == 1) {		//if alive, add 1 to counter
+				if(i!=-1 && i!=getWidth()+1 && j!=-1 && j!=getHeight()+1) {	//if neighbor is not outside the map
+					if(getCell(i,j) == 1) {	//if alive, add 1 to counter
 						aliveNeighbors++;
 					}
+				}
+					
 			}
 		}
 		
@@ -184,35 +191,23 @@ public class Simulator extends Thread {
 		 */
 		
 		//calculate and set newCells based on cells
-		//i started from 1 and ended < to ignore the borders
-		for(int x=1; x < getWidth();x++) {
-			for(int y=1; y < getHeight(); y++) {
+		for(int x=0; x <= getWidth();x++) {
+			for(int y=0; y <= getHeight(); y++) {
+				
 				int status = getCell(x,y);
 				
 				if(status == 1) {
-					//cellDies(x, y);
-					int aliveNeighbors = getAliveNeighbors(x, y, LIFE_AREA_RADIUS);
-					
-					if(aliveNeighbors < 2 || aliveNeighbors > 3) {
-						//setNewCell(x, y, 0);
-						newCells.get(x).set(y, 0);
-						}else{newCells.get(x).set(y, status);}
-				}else if(status == 0) {	
-					//cellBorns(x, y);
-					int aliveNeighbors = getAliveNeighbors(x, y, LIFE_AREA_RADIUS);
-					
-					if(aliveNeighbors == 3) {
-						//setNewCell(x, y, 1);
-						newCells.get(x).set(y, 1);
-					}else{newCells.get(x).set(y, status);}
+					cellDies(x, y); //check if cell should die
+				}else if(status == 0) {
+					cellBorns(x, y); //check if cell should born
 				}
 				
 			}
 		}
 		
 		//update cells
-		for(int x=1; x < getWidth();x++) {
-			for(int y=1; y < getHeight(); y++) {
+		for(int x=0; x <= getWidth();x++) {
+			for(int y=0; y <= getHeight(); y++) {
 				int status = getNewCell(x,y);
 				setCell(x, y, status);
 			}
@@ -272,8 +267,8 @@ public class Simulator extends Thread {
 	
 	public int getNewCell(int x, int y) {
 		//TODO : complete method with proper return
-		//int status = newCells.get(x).get(y).getAlive();
-		int status = newCells.get(x).get(y);
+		int status = newCells.get(x).get(y).getAlive();
+		//int status = newCells.get(x).get(y);
 		return status;
 	}
 
@@ -312,9 +307,9 @@ public class Simulator extends Thread {
 	public void setCell(int x, int y, int status) {
 		cells.get(x).get(y).setAlive(status);
 	}
-	/*public void setNewCell(int x, int y, int status) {
+	public void setNewCell(int x, int y, int status) {
 		newCells.get(x).get(y).setAlive(status);
-	}*/
+	}
 	
 	/**
 	 *