commented out calls to obsolete script shscript/fmp00B_hackBarcodes.sh
fixed bug -- variable "lastDir" was sometimes not getting set before being checked
added "update" functionality
added a call to addDiseaseCode after the merge ... sometimes there is
molecular data before there is clinical data and the disease_code field
winds up being set to NA even though we *do* know which disease it is for
new version of post-processing script -- replaces proc_pwpv2.sh and
is called by main/run-pairwise-v2.py
changed output format for correlation coefficient (from 3 decimal places to 2)
changed correlation coefficient output format from 3 decimal places to 2
changed default values for min-ct-cell, min-mx-cell, and min-samples;
also updated to invoke the newest version of pairwise 2.0
changed default values of min-ct-cell, min-mx-cell, and min-samples
modified to allow for new optional (final) command-line argument to
specify the name of the config file
fixed a bug with the one-vs-all option
Removing metainfo/debug header lines from output
updated RPPA to create features for all genes related to an antibody.  updated test to now go against two branches of gidget, normally master vs. new branch
Merge branch 'develop' of https://github.com/cancerregulome/gidget into develop
now using newest binary from RK (pairwise-2.0.0rc4-rel)
added debug output
new versions of existing scripts to run pairwise "v2"
modified so that the name of the "aux" directory can be specified at the
command line -- eg "aux-manuscript" or "aux-test" -- if unspecified it will
default to the current assumed name which is simply "aux"
new sample META file for loading into RE database
added some stuff at the end of this script to make a preliminary META
data file that is almost, but not quite ready to use for importing into RE