Remove sample specific options and use them as rule specific.

Closes #158 (closed). The features softclip, passmode, multimappers of STAR are relocated to the rule config and given a default value. The documentation is updated and these options are removed from the immutable lists in the corresponding rules.

approved this merge request

Makes sense to me, params moved from the TSV table to per-rule config. Looks OK.

A Merge Request has been submitted by the core developer, CI passed, another dev approved it, no one else commented. Seems ready, I can merge this on Monday, please shout if not(?)

merged

mentioned in commit 18257b60

mentioned in issue #158 (closed)