Hidden files are ignored. Added --version option and logging.
* Added logging with SLF4J and Logback * Added `--version` option. * Mofidied the input file rules. When an input object is a directory, JLPMain is adding all the files in that directory and its subdirectories. Now JLPMain is ignoring hidden files in the directory and subdirs. A file named explicitly on the command line is still included regardless of if it is hidden or not. * Documentation continues.
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