v0.8.0

PyHMMER has been accepted for publication in Bioinformatics. Paper accessible here: doi:10.1093/bioinformatics/btad214.

Added

• pyhmmer.hmmer.jackhmmer function to run several JackHMMER iterative searches in parallel using multithreading (#35, by @zdk123).
• HMM.to_profile shortcut method to allocate and configure a new Profile object.

Fixed

• Type annotations of Pipeline.iterate_seq and Pipeline.iterate_hmm.
• Potential memory leak on exceptions raised by HMMPressedFile.read.
• Offsets.profile not recording offsets properly, causing pyhmmer.hmmer.hmmpress to produce invalid pressed files (#37).

Changed

• HMM.__init__ and HMM.sample now take the Alphabet as the first argument, for consistency with the rest of the API.
• HMM now require a name argument.

Removed

• Deprecated ignore_gaps argument in SequenceFile.__init__.
• Deprecated Sequence.taxonomy_id property.