Bugfix #2830 develop fix missing log output (#2841) * Per #2830, skip closing of log handlers for METplusConfig objects that are created for copying values for process list instances so they are not closed before the end of the run. * remove some output directories after tests are run

Bugfix #2830 develop fix missing log output (#2841) * Per #2830, skip closing of log handlers for METplusConfig objects that are created for copying values for process list instances so they are not closed before the end of the run. * remove some output directories after tests are run #5147