What you say is indeed true, if you take a monolithic approach to problem solving. And I tire of this approach--dammit, we're tool-builders! We have been shown the Unix Way, and yet we ignore it time and again, forcing us into suboptimal solutions to our problems.
Moving "QUUX formatted records from BAZ mainframe to new Oracle Windows Java 7.0 Lightweight Enterprise Server" involves these things: a source, a sink and the pipe character. Your source and sink may necessarily be in Java--meh, whatever works. But now you have a decoupled framework for doing these kinds of jobs, and you haven't invested any more time or effort than you would have with your one-off, inflexible solution. And you can now stuff anything in that pipeline. And I regularly use racket for exactly this, using protocol buffers as the pipe character. It's not rocket science, it's the Unix Way. People, embrace it and free yourself from the monolithic millstone!