Initial round of bugfixes to make program actually work

jobThread.java

@@ -21,10 +21,12 @@ public class jobThread extends Thread {
 		this.parentAlgorithm = parentClass;
 		this.elapsedTime = 0;
 		this.isPaused = false;
-		this.startTime = 0;
+		this.startTime = System.currentTimeMillis();
 		this.jobID = jobID;
 		this.jobSize = jobSize;
 		this.beginningLocation = beginningLocation;
+		
+		this.jobDone = false;
 	}
 	
 	public void setBeginning(int newBeginning){

memoryManagement.java

@@ -30,7 +30,8 @@ public class memoryManagement{
 		int[] time = new int[JOBAMOUNT];
 		
 		//******Add your algorithm class here******//
-		baseAlgorithm alg = new dummyAlgorithm(MEMORYSIZE);
+		//baseAlgorithm alg = new dummyAlgorithm(MEMORYSIZE);
+		threadedAllocation Bradlee_Speice = new threadedAllocation(MEMORYSIZE);
 		
 		//Gets a file name, else creates five random jobs
 		do{							
@@ -43,7 +44,7 @@ public class memoryManagement{
 	
 		//Create random jobs or read from the file and create jobs
 		if(read.equals("")){
-			System.out.print("Creating "+JOBAMOUNT+" random jobs...");
+			System.out.print("Creating " + JOBAMOUNT + " random jobs...");
 			jobLength = JOBAMOUNT;
 			for(int i = 0; i < jobLength; i++){
 				id[i] = i+1;
@@ -67,15 +68,21 @@ public class memoryManagement{
 		}
 		
 		//Send jobs to algorithm, time is calculated and printed out after completion
-		System.out.print("Sending jobs to algorithm...");
+		System.out.print("Sending jobs to threaded allocation algorithm...");
 		timeStart = System.currentTimeMillis();
-		for(int i = 0; i < jobLength; i++){
-			alg.allocate(id[i], size[i], time[i]);
+		//Note that we use `jobLength - 1` to compensate for the id above
+		for(int i = 0; i < jobLength - 1; i++){
+			Bradlee_Speice.allocate(id[i], size[i], time[i]);
 		}
 		timeEnd = System.currentTimeMillis() - timeStart;
 		System.out.println("complete");
-		System.out.println("Elapsed time for algorithm to complete "+ jobLength+" jobs is "+timeEnd+" milliseconds");
+		System.out.println("Elapsed time for threaded allocation algorithm to complete " + jobLength +
+							" jobs is " + timeEnd + " milliseconds");
+		
+		//Put other algorithms here.
 		
 		System.out.println("Completed Successfully");
+		//Forcibly close down all threads
+		System.exit(0);
 	}
 }

threadedAllocation.java

@@ -13,7 +13,7 @@ public class threadedAllocation implements baseAlgorithm{
 		memoryBlock = new int[memorySize];
 		
 		this.garbageThread = new threadedAllocationGarbage(this.memoryBlock, 20, this.jobArray);
-		this.garbageThread.run();
+		this.garbageThread.start();
 		
 		// Set up the array of job references
 		jobArray = new Job[memoryManagement.JOBAMOUNT];
@@ -41,8 +41,10 @@ public class threadedAllocation implements baseAlgorithm{
 				free += 1;
 			}
 
-			if (free >= blockSize)
+			if (free >= blockSize){
+				System.out.println("Found a block of size " + blockSize + " at " + beginningLoc);
 				return beginningLoc;
+			}
 		}
 		//Once the above loop has exited, we've run out of locations to check
 		return -1;
@@ -51,6 +53,7 @@ public class threadedAllocation implements baseAlgorithm{
 	public void allocate(int jobID, int jobSize, int jobLength ){
 		/* Over-rides allocate() of baseAlgorithm */
 		try{
+			System.err.println("Allocating job with ID " + jobID);
 			Method deallocateMethod = this.getClass().getMethod("deallocate", new Class[]{int.class, int.class});
 			
 			//Loop until we get a block big enough for our job
@@ -65,9 +68,8 @@ public class threadedAllocation implements baseAlgorithm{
 				memoryBlock[beginningLocation + x] = jobID;
 			}
 	
-			//TODO: Code to start the job
 			Job newJob = new Job(jobLength, jobID, jobSize, beginningLocation, deallocateMethod, this);
-			jobArray[jobID] = newJob;
+			jobArray[jobID - 1] = newJob;
 			newJob.start();
 		} catch (Exception e){
 			System.out.println("Could not allocate job with ID " + jobID);
@@ -76,7 +78,7 @@ public class threadedAllocation implements baseAlgorithm{
 
 	public void deallocate(int jobSize, int beginningLocation){
 		/* Over-rides deallocate() of baseAlgorithm */
-
+		
 		//Simple algorithm, basically just mark the memory as cleared.
 		for (int x = 0; x < jobSize; x++)
 		{

threadedAllocationGarbage.java

@@ -26,20 +26,23 @@ class threadedAllocationGarbage extends Thread
 		int maxFreeSize = 0, maxFreeIndex = 0;
 		while (memoryLoc < this.memoryBlock.length)
 		{
-			if (this.memoryBlock[memoryLoc] != 0)
+			if (this.memoryBlock[memoryLoc] != 0){
 				//Block isn't free
+				memoryLoc++;
 				continue;
+			}
 
 			//One location is free, find out total size free
 			//This loop breaks either when we've found the size we need, or
 			//we found the beginning of the next block.
 			int beginningLoc = memoryLoc;
 			int free = 0;
-			while (this.memoryBlock[memoryLoc] == 0)
+			while (memoryLoc < this.memoryBlock.length && this.memoryBlock[memoryLoc] == 0)
 			{
 				memoryLoc += 1;
 				free += 1;
 			}
+			
 			//We've found the end of that chunk, see if it's bigger than what we have on file
 			if (free > maxFreeSize){
 				maxFreeSize = free;
@@ -75,11 +78,19 @@ class threadedAllocationGarbage extends Thread
 				continue;
 			
 			//Find out what ID the job is, and how big it is
-			int jobID = this.memoryBlock[maxFreeBeginning + maxFreeSize + 1];
+			//Make it safe though - if we reach the end of the array, we don't
+			//want to cause an out-of-bounds exception
+			int jobIndex = maxFreeBeginning + maxFreeSize + 1;
+			int jobID;
+			if (jobIndex < this.memoryBlock.length)
+				jobID = this.memoryBlock[maxFreeBeginning + maxFreeSize + 1];
+			else
+				continue;
 			
 			int jobSize = 0;
 			int counter = maxFreeBeginning + maxFreeSize;
-			while (this.memoryBlock[counter] == jobID){
+			//Note that the logic must be in this order to short-circuit if it would cause an array-out-of-bounds
+			while (counter < this.memoryBlock.length && this.memoryBlock[counter] == jobID){
 				counter++;
 				jobSize++;
 			}
@@ -88,7 +99,8 @@ class threadedAllocationGarbage extends Thread
 			//Note that we need to lock out the allocation to prevent a race
 			synchronized (this.memoryBlock) {
 				//Pause the job operation
-				jobArray[jobID].pause();
+				System.out.println("Job ID about to pause: " + jobID );
+				jobArray[jobID - 1].pause();
 				
 				//Write the job into the free space
 				int memoryLoc = maxFreeBeginning;
@@ -99,10 +111,10 @@ class threadedAllocationGarbage extends Thread
 				}
 				
 				//Inform the job of its new beginning location
-				jobArray[jobID].setBeginningLocation(maxFreeBeginning);
+				jobArray[jobID - 1].setBeginningLocation(maxFreeBeginning);
 				
 				//Restart the job
-				jobArray[jobID].resume();
+				jobArray[jobID - 1].resume();
 				
 				//Write the remaining memory as free
 				counter = 0;