v0.6.0

Changed

• Make better-exceptions an optional dependency.

Fixed

• Discrepancy with OrthoANI values for high similarity genomes (#2).
• Remaining files of temporary BLAST databases not being removed.

Removed

• Support for Python 3.5.

0.5.0

Fixed

• Exception messages not properly rendering with --traceback enabled.
• Use os.cpu_count instead of multiprocessing.cpu_count where applicable.
• Make BlockIterator zero-copy using indices instead of slices.

Changed

• Use seqidlist to reduce number of blocks compared in backward search.
• Switch to use BLASTdb v5 (instead of v4 previously).
• Prefix temporary files with orthoani prefix.
• Skip blocks containing more than 80% unknown nucleotides like in original implementation.
• Average ANI values based on HSPs instead of reciprocical blocks like in original implementation.

0.4.0

Changed

• Entire sequences smaller than the given blocksize will be padded with N.
• biopython requirement was relaxed to v1.73.

Fixed

• Code using builtin API not available in Python3.5.

0.3.2

Fixed

• orthoani CLI ignoring the value of the --jobs flag.

0.3.1

Fixed

• blastn and makeblastdb being called with shell=True, causing issues
  if shell cannot be forked.
• Traceback not being displayed even with --traceback flag.

Changed

• ANI values are collected using decimal.Decimal instead of float.

0.3.0

Added

• Support for genomes segmented in multiple contigs.

0.2.1

Fixed

• Temporary files with chopped FASTA not being deleted.

0.2.0

Added

• threads argument controlling BLASTn thread count to orthoani and orthoani_pairwise.
• -j / --jobs flag controlling BLASTn thread count to CLI.
• Proper documentation and error codes to CLI.
• orthoani console script to call the CLI without python -m invocation.

0.1.0-post1

Fixed

• Travis-CI badge not rendering on README.md.

Changed

• Made development status Beta instead of Alpha in setup.cfg.

0.1.0

Initial release.