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In early versions of JavaFX, one had to download a special JavaFX SDK and write your code using a special JavaFX-Script. Now JavaFX is included in distributions of the JDK, beginning with JavaSE 7 and is coded using plain Java (or through the use of other JVM languages, groovy, scala or jruby). Hope that answers your question, it's nothing more complicated than that.
*The discontinued JavaFX-Script has been made available as the language Visage : https://code.google.com/p/visage/ .