Easy... according to this article [HOW TO] Launch Application from Terminal?
String jsflPath = "/var/...tmp/sample.jsfl";
File jsflFile = new File(jsflPath);
jsflFile.setExecutable(true);
String[] commands = new String[]{"open", jsflFile.getAbsolutePath() };
ProcessBuilder pb = new ProcessBuilder(commands);
pb.start();
or
String[] commands = new String[]{"open", "-a", "Adobe Flash CS5", jsflFile.getAbsolutePath()};