Finish porting commands to picocli

[marinier]

There are still a few commands that have not been ported to picocli. As part of this, we should also update to the latest picocli. There may be some enhancements we can take advantage of. E.g., I apparently got involved in this issue because I thought it would help with some commands.

For SoarTech employees, note there is a page here that gives the status of the porting, and it's probably up-to-date. For everyone else, here's an export of the page:
Confluence-space-export-112814-80.html.zip