fix click reporting arg specification

[bluegenes]

Closes #100.

Default values for several reporting file arguments were set to False instead of None, which led click to infer that these were supposed to take boolean type input. This PR changes those defaults to None.

Also fixes minor issues in two unrelated tests.

PR checklist

• [x] This comment contains a description of changes (with reason)
• [x] Ensure the test suite passes with pytest . (command to run: pytest or make coverage if you want to see which lines don't have tests yet)
• [x] Make sure your code is linted and autoformatted using black (black . --check).

[bluegenes]

ready for review @olgabot @pranathivemuri. Tests passing locally, seems to be installation issues on gh...

[pranathivemuri]

the code looks good to me, have never seen the github action error though and couldn't get a good search result by googling the error either