3.1.6

3.1.6 (29 January 2019)

Features

• filter: Allow negative matches to --exclude-where. For example,
  --exclude-where country!=usa would exclude all samples where metadata country does
  not equal usa.
• tree: Allow --exclude-sites to work with FASTA input. Ensure that indexing of input
  sites is one-based.

Bug fixes

• fix loading of strains when loading titers from file, previously strains had not been
  filtered to match the tree appropriately