v1.5.2

Minor release to update the Mercury Workflows
The Mercury workflows (Mercury_PE_Prep, Mercury_SE_Prep, and Mercury_Batch) have been updated to enable the inclusion of all required and suggested metadata as per the PHA4GE SARS-CoV-2 Contextual Data Specifications.

In addition to the submittable files to GISAID and GenBank, the Mercury workflows to prepare files for both BioSample registration, SRA submission. A protocol to utilize these new workflows for SC2 data submission has been made publicly available on Protocols.io.

Other modifications made

• Pangolin task modified to capture all software and reference versions; outputs have changed accordingly:
  -- pangolin_version: deprecated
  -- pangolin_usher_version: deprecated
  -- pangolin_versions: all pangolin software and reference data versions
  -- pangolin_assignment_version: version captured from the final pangolin report, i.e. version of inference approach utilized to make the final pango lineage assignment
• Titan workflows for genomic characterization modified to remove the pangolin_docker_image input parameter
  -- The pangolin_docker_image is now an optional input parameter for the pangolin3 task titled docker
  -- The default value for the pangolin3.docker input parameter has been set to staphb/pangolin:3.1.11-pangolearn-2021-08-24
• nextclade_one_sample task modified to allow processing of 0bp assembly files (PR by @HNH0303 #64)
• titan_augur_run workflow modified to address bug regarding processing of unmasked inputs (PR by @dpark01 #62)