v0.14.0

• Remove tempdir dependency so Python > 3.6 can be used
• create now supports --no_tree to build a package that is DIAMOND-only.
• graftm: Add --diamond_performance_parameters.
• bugfixes.

Thanks to @AroneyS for help with some of these.

v0.13.1

• Update to Python-3, Python-2 no longer supported
• Replace fxtract with mfqe
• create: Accept --alignment and --hmm begrudgingly
• create: Increase the recursion limit, for large trees
• accept interleaved input (Thanks to @jmeppley )
• documentation and bug fixes.

v0.12.2

• Fix bug where (rarely) using amino acid HMMs where the alignments were split was not handled correctly. Now do not split when aligning to amino acid models.

v0.12.1

• Fix bug in output jplace for certain paired reads

v0.12.0

• Several small bug fixes
• create: Allow dereplication levels > 7
• update: Add option to regenerate diamond databases

v0.11.1

• test data now included in PyPI distribution tar.gz

v0.11.0

• create can handle taxonomies like Silva with >7 levels
• default create --dereplication_level now 0 (no dereplication)
• various bug fixes and other enhancements

v0.10.1

• graft: New option --decoy_database to exclude sequences which have a better diamond hit to a database of decoys than the sequences in the GraftM package.
• graft: New search method diamond+hmmsearch requiring hits to be detected by both hmmsearch and diamond.
• graft: Merging reads before taxonomic placement is now default.
• Removed dependency on skbio, instead use dendropy for tree parsing.
• Many bugfixes and internal code improvements.