I am a .NET developer (and have been for a while now). I work for an organization that was just recently acquired by a larger company whose primary development language is Java. There are a few .NET developers, but the ratio of .NET to Java has decreased substantially now that the teams have merged.
That being said, I've decided it would be best for me to start Java development. However, most of the books I've seen so far for "learning Java" all take a very basic approach (what is a class, OOP principles, etc etc). I am comfortable with this part of development and don't need a primer (unless there are differences so profound that someone recommends the fundamentals from a Java perspective...).
Anyway, I'm looking for a book recommendation for Java development from a software developer's perspective that discusses today's techniques. For example, MVC architecture, application best practices (I am a web developer, this includes web services), is it worthwhile to work with JSPs or consider Ruby instead, etc etc.
A HUGE bonus would be "learning through doing". Something like Murachs, where I can step through a project from start to finish, and is light enough on fundamentals that I don't get bored. I'm hoping to walk away with enough basic knowledge to volunteer for some internal projects and grow from there.
I'm sorry if my question is needlessly broad, but I'm struggling to find a starting point aside from my Eclipse installation (I am doing this on Ubuntu, deliberately avoiding Windows).
Thanks for any direction or insight you can offer.
EDIT - After discussing with a co-worker, and reading Bert's great suggestion (all of them have been excellent, thank you all very much), it turns out the main focus is on EE, and Glassfish. They use NetBeans for development, since it is tightly bound to Glassfish.
This doesn't mean much to me, except that I think the parallel drawn is IIS/Web apps to Win32 apps. But perhaps it will help clarify some of the more open-ended questions in my OP.