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What communication is going on between Eclipse and my application server (JBoss) when I run the server from within Eclipse in debugging mode? How does this work?
When you start the server in debug mode, it listens on a specified TCP port. Eclipse connects to that port, and they talk using the Java Debug Wire Protocol (JDWP). Read the details here: http://java.sun.com/j2se/1.5.0/docs/guide/jpda/