ADD:SUMMARYPLOTMAKER NOW USES SAMPLEHANDLER INSTEAD OF TFILE

Moving to SampleHandler will allow for easier setting up of jobs based
on tags and meta-data. Especially useful for naming output directories
and tracking provenance of samples.
FIX:FIX BUG WITH FEEDING OF SAMPLEHANDLER FROM SCRIPT

Fix bug where SummaryPlotMaker wanted a pointer but instead got an
object