FIXES rc issues
User now have to choose order of global, local, and/or custom config file
ADDS multiple truthy/falsy synonyms to boolan options in "rc"
Exposes the threshold option to the CLI for optimizing BAM-file reading with SAMTools, fixes #58
BREAKING: Makes group_id field in database a string instead of an integer (more flexibility) fixes #38
Insignificant changes before reboot