Added reference documentation for command-line options (#354)
* Added reference documentation for command-line options - Intentionally didn't document -o, -O and -n Offline mode is an attractive nuisance. -n is unlikely to be needed and can be spelled newest=true - Removed -o, -O and -n from command help. - Sorted options alphabetically in the reference doc and command help. - Removed documentation of the log-level option. It just confuses things. I seriously doubt that anyone uses it.
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