Make citation tools dependent on whether tool was executed

[apeltzer]

          OMG ever since I added this I think this is the first time I've seen someone else use it :star_struck: .

Do all tools get used by default? If some are optional you can also specify each tool with a condition e.g. params.run_<tool> ? <ref> : ''

Originally posted by @jfy133 in #446 (comment)

[jfy133]

See taxprofiler for a (complex) example :)

Note this is a minor one and not a blockwr for the release.