Refactor runSuite method in MDQEngine class to remove system metadata related arguments

[doulikecookiedough]

When running a suite, the check itself that is being run should be accessing data objects and system metadata directly. We should not require any system metadata documents when runSuite is being executed.

Investigate and remove all system metadata and related dependencies from the method. It seems that we may still need some form of system metadata when adding an entry/inserting to the solr index.