Correct rdoc for self.run
Correct rdoc for self.run

The rdoc was incorrectly refering to `#initialize` instead of
`#parse_options` for adding custom option parsing.

Indentation for example code was missing.

creideiki/palletjack,notCalle/palletjack,saab-simc-admin/palletjack,creideiki/palletjack,notCalle/palletjack,saab-simc-admin/palletjack