v1.0.0-RC3

Pre-release with the following improvements:

• Squirls
  • improve documentation
  • use Jannovar v0.35, SLF4J v1.7.30
• squirls-cli
  • use Picocli for CLI definition, prettify CLI
  • support HTML and VCF output formats
  • numerous bug fixes
  • allow to specify # threads
  • improve progress reporting
• squirls-core
  • mark API classes
• squirls-ingest
  • create a ZIP file after ingest
  • add sanity checks for transcripts