v1.9 - Here's my region of interest

This is the ninth minor release (v1.9) introducing user-provided feature regions and various minor improvements.

Compatible database scheme version: 5

New features

• Support a priori user-provided feature regions via --regions either in Genbank or GFF3 format (currently, only CDS features are supported). CDS coordinates are imported, supersede de novo predicted CDS, and are subject to the regular internal annotation workflow. To provide functional annotation, as well use --proteins: #216 #245 #247 #250 #259 (Thanks @marade @PengfanZhang @simone-pignotti @thorellk)

Improvements

• Extract & export CRISPR spacer & repeat sequences: #171 #249 (Thanks @alexweisberg)
• Add support for Pyrodigal v3: #240 #244 (Thanks @jsgounot)
• Replace HMMER with PyHMMER: #219 (Thanks @jhahnfeld)
• Re-activate parallel pyrodigal gene prediction: #252 (Thanks @althonos)
• Introduce auxiliary scripts: #246 #251 (Thanks @AhmedElsherbini)
• Add Podman wrapper script: bd50faa
• Update dependencies to latest versions: 3260441 33c02f9 a1d2ffe b265672 1a2c48e

Fixes

• Fix PyPI CD: #231
• Add missing --force parameter to Docker wrapper script: f39434e
• Fix wrong runtime report: #243

Full Changelog: v1.8.2...v1.9.0