Initial pass at defining high priority findbugs

Removing bugs for metadb and webservice
Enforcing standard for modules other than common and pipeline
Merge branch 'develop' into feature/whitestar_testing
Kill some silly bugs
Fix up minor issues
Update plugin versions
Bump a number of our dependencies used by whitestar

Also update aws dependency due to AWS reported security issue
Replace commons-lang with commons-lang3 across the board
Upgrade to collections4 across the board except for portal
Remove strange JS stub that looks like a precursor to
seqware-queryengine-legacy
Configure skip coverage and pmd for "mvn clean install -DskipTests"
Merge pull request #277 from SeqWare/feature/whitestar_testing

Feature/whitestar testing