updated workflow submodule to a43bedf
IDs are 32 characters long.
s/genotpe/genotype/
Don't try to look up chromosomes that aren't present in the reference.
update blessed build for refalign-germline-short and som-val-sv
Assume that we're running on at least 5.10.1 now.
The config Translator now wraps bare config hashes in array refs.

This normalization keeps all information regarding the underlying
structure of config file in the Translator and allows us to move
it out of the Profile object.
Cache correct sub
include user_name in config hashes for CQID tests
add helper method to get counts of indexed documents by class
updated exporter to export alignment indexes
Remove unused data source

From https://jira.gsc.wustl.edu/browse/AR-322
update blessed build for som-var
updating git with currently deployed script

Deployed script found at:
imp-apipe.gsc.wustl.edu:/etc/init.d/genome_view
updating git with currently deployed script

Deployed script found at:
/gsc/scripts/sbin/genome_view
placing 6-Post-Promote shell script under vcs

previously only existed at:
http://apipe-ci.gsc.wustl.edu/job/6%20Post%20Promote%20(restart%20genome-view)/configure

Planning to deploy to:
/gsc/scripts/bin/genome_view_init_wrapper
Merge branch 'ar375'

https://jira.gsc.wustl.edu/browse/AR-375
remove outdated dgi references
removing file which is tracked in another repo

The genome_view script also is tracked in puppet-modules.git and belongs
there:

/srv/git/puppet-modules.git as site/imp_apipe/files/genome_view
update exporter to export annotation indexes for the aligners we are interested in to shortcut rnaseq tophat indexing