Fix progress and help options

[melissalinkert]

As discussed earlier today with @sbesson and @chris-allan.

With this change, commands similar to:

$ bioformats2raw --help
$ bioformats2raw -p --foo test.fake test.zarr
$ bioformats2raw -p --help

should print a usage message and exit.

I don't know why the help flag was set for -p/--progress-bars, maybe @joshmoore remembers from the initial implementation in #83?

raw2ometiff will need a similar update once we're happy with the state of this PR.

[joshmoore]

Uff. My guess is that it was a copy-n-paste error.

[chris-allan]

Progress option interactions now work as I would expect. Can we use the standard options for --help?

• https://picocli.info/#_mixin_standard_help_options

[melissalinkert]

Can we use the standard options for --help?

• https://picocli.info/#_mixin_standard_help_options

Main reason I didn't do that here was that we already define -h as the short option for setting the tile height.