Adding copies of @hrovira's fmx mongodb loading scripts from https://github.com/cancerregulome/GeneSpot/tree/2f91dab6994f526d5d4ae86aada12d5ddaec89b4/misc
adding python hashbang line.
fixing typo: missing hyphen.
removed hard-coded environment variables and modified checks at the
top of script
added VT_SURVIVAL environment variable usage/check
Merge branch 'feature/env-var-fixes' into develop
copying this code over from /titan/cancerregulome8/TCGA/scripts/dcc-snapshot-2.alt.py
this list of tumor abbreviations is used by the wget*.sh scripts
changed name and path for *snapshot*.py called from this script
modified to get the list of tumors from the external file tumor_list.txt
Merge branch 'feature/wget-mods' into develop
commented out excessive print statements
modifid parseBestClusFiles to make a call to miscTCGA.fixTCGAbarcode()
fixed typo: VT_UTILS not VT_UTIL
forgot to fix this one -- now using $TCGAFMP_ROOT_DIR to find code and using tumor_list.txt to get tumor types
Merge branch 'feature/initial-database-loading' into develop
fixed typo in variable name
fixed pathname for expression_matrix_mimat.pl (from hardcoded path to environment variable)
Merge branch 'feature/FH-processing' into develop
Merge branch 'develop' of https://github.com/cancerregulome/gidget into develop