Made input_bams and spike_contributor_bams mandatory arguments to the script.
Added automatic determination of individual names.

Added a check to make sure there are at least 2 libraries.

Rename INDIV1 and INDIV2 to primaryIndividual and spikeInIndividual
Fix:  Making fn_data be built off the list of tumor files instead of a hardcoded list.

Refactoring: Moving unecessary global constants into a local scope
--deleting redundant vcfDataDir