It may be a bit late for sentiment, but if you are having issues installing, feel free to post here and ask a question. Or on the bug tracker.
I also
just posted a
FAQ detailing the most common installation/usage problems. I'd be willing to bet your problem was covered in there, though I may be wrong.
Java was chosen because it was (1) known and (2) compared to everything else, required very little work to get functional cross-platform. As someone who exclusively runs 64-bit linux, I'm pleased it was chosen.
I know when I heard WoWI was making an updater I was excited and was hoping for something similar to WAU or even WoWMatrix (Both just worked) but I guess Java was the choice for them.
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The language is rarely if ever the reason behind a program working or not. Admittedly, for whatever reason, Java has presented itself with a wide array of basic functionality issues in terms of installation and running, but seriously - read
this and I bet your problem would be covered.