Changes to more efficiently grab the models for the entities.

Call a different optimized path based on the class of entity
we're looking up.
Updated class browser cache.
Updated `genome` tab completion.
Updated `gmt` tab completion.
set root allocation directory to read only
unset WF_USE_FLOW for testing
make version a string so test data can be designated in a clear manner
remove HqPos report from RefAlign
remove (seemingly) unused VarScan import
remove gmt capture parsing-script
header fix
Merge branch 'master' into gms-pub