commented out some debug print statements
added code to use Gencode database for annotation, also made changes
to try and make sure everything is case-insensitive
added patient barcode to a couple of debug/log-file print statements
commented out some debug print statements
cleaned up script a little bit, changed the handling of multiple gene
expression platforms somewhat (eg COAD and READ have GA and  HiSeq data
from UNC, UCEC also has a mix of platforms and annotation pipeline
versions, LAML has data from both UNC and BCGSC, etc)
changed the way multiple RNAseq platforms are handled
added new platform: unc_edu_illuminaga_rnaseqv2
updated comments to reflect new platform (unc_edu_illuminaga_rnaseqv2)
added new platform (unc_edu_illuminaga_rnaseqv2)
updated instructions