Fix package name and class name mistakes
Complete transition of chimerascan to a workflow
Fix lookup for picard_version

While it is a model parameter, and hence a build parameter, it is only
on the model so it can be specified in the processing-profile.  This is
misleading imo.
Updated class browser cache.
Updated `genome` tab completion.
add FilterStructures command for edgeR
add help messages to edge-r filter-structures
change edge-r filter-structures params:

specify percentile/min_count in terms of what it takes to fail the
filter (as opposed to survive) & update docs accordingly.
1 at end of module
improve filter-structures test:

look at actual rows of counts that survive the filter, not just the
gene names.
DetectFusions command correctly handels linking software-results
Fix silly mistake
Rnaseq test model should diff clean now
Remove unused BackfillIndelVcf xml
Add varscan_version as a param to CreateCrossSampleIndels
Merge branch 'crosssampleindel' into gb_master
SomVal: add known sites input to allow model copy and updte to capture this input.
Normalize indels during indel backfill operations for AP-151.
Merge branch 'normalize' into gb_master
Added BackfillIndelVcfHelper which is necessary for my last commit.