Process never ends

Hi,
I'm developing -fixing somebody application- a SuperWaba application. SuperWaba is a poor minor release of Java Runtime. I'm transforming SQL Scripts into PDB files -i hate PDB files.
I make a Class that extends MainWindow that is called by Waba Applet. Waba Applet extends Java Applet -I hope so. When I run my class from the shell (cmd, over a Windows XP), an Applet Window appears and execute without erros my script transforming a SQL script in one or multiple pdb files (depending number of create sentences).
But, when i call my script from a PHP Script -i really hate this app, PHP + Java + ASP + Visual Basic ... can you believe it ? - the PHP Script launch Java, but Java app never ends blocking my PHP script. I think there is a problem in Applet Window creation, because there is no window or display to launch the app.
There is a way to run an Applet in background with no visualization ?
THX 4 Ur HELP

i really appreciate your help but i forgot to explain the problem
First, i decide to create a simple Java App that uses the PDBDriver JAR, but the #~"$%" Jar uses something from the Applet. When I run my class it launch these error.
java.lang.NullPointerException
        at java.applet.Applet.getCodeBase(Unknown Source)
        at waba.applet.JavaBridge.openOutputStream(JavaBridge.java:533)
        at waba.applet.JavaBridge.writeBytes(JavaBridge.java:588)
        at waba.io.NativeMethods4JDK.catalogClose(NativeMethods4JDK.java:824)
        at waba.io.NativeMethods4JDK$CatalogBag.finalize(NativeMethods4JDK.java: 674)
        at java.lang.ref.Finalizer.invokeFinalizeMethod(Native Method)
        at java.lang.ref.Finalizer.runFinalizer(Unknown Source)
        at java.lang.ref.Finalizer.access$100(Unknown Source)
        at java.lang.ref.Finalizer$3.run(Unknown Source)
        at java.lang.Thread.run(Unknown Source)
#2- url: file://localhost/nullfile.pdb
found under localhost: file://localhost/nullfile.pdb
file not found

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