Moved App initialisation into a separate function.
Small PHPDoc updates.
Added ability to override pretty much all config settings.

Previously, if a setting was in a group of numerically-indexed items, it
wasn't possible to override the settings inside them.

Now, if you have a config node in the same place, and the "name"
attributes are the same, the values in the later area will override the
values in the older area.
Bumped up the version number and updated the readme file.
Removed unused config file.