changing instance of patient out for the more generally applicable individual, this may break some analyst scripts that I will attempt to discover
changes to get tests passing after patient to individual naming change in genome sample
multiple changes to views, reports, ClinSeq to support the change from patient_common_name to individual_common_name
replacing patient_name with individual_name
batch of updates to get some ClinSeq and Export commands to pass
pass b-r-c version to clinseq steps
changed 4 ClinSeq scripts that were used by 4 ClinSeq converge tests to not use the patient accessor on Sample
Merge 4d9c0df4e0fef85199c463e8f9eb2f358e38abac into 618c9e8a7bd3194ae89fa9d345be4056f3637128
hard-code secondary bam-readcount version

The last passing builds ClinSeq was using 0.4 in "Run clonality analysis
and produce clonality plots" while using 0.6 in "Produce a report using
DOCM" and "Generate SnvIndel Report".  This change preserves that
behavior while not just using a default value.
reverting inadvertent changes to variable names in a ClinSeq module
Merge pull request #65 from jeldred/master
Merge pull request #79 from nnutter/bam_readcount_ver_clinseq