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Updating JCommander to 1.78 (Fixes #612) #629

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Updating JCommander to 1.78 (Fixes #612) #629

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comunacho
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Fixes #612

There's a known issue with jCommander.setAcceptUnknownOptions(true), described here. Disabling that option and updating tests that were using unknown parameters helped to get a green build.

(Rebased version of #615)

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JCommander trims argument values from the command line
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