MetaCerberus v1.4.0

Version 1.4.0

v1.4.0 New Features

• Replaced Ray with HydraMPP
  • Reduced number of dependencies making install easier

v1.4.0 Improvements

• Removed a redundant hmm search when using KOFam
• Organized output files

v1.4.0 Bug Fixes

• Fixed resume feature for hmm step
• Fixed counting conflict between parser and filter steps

MetaCerberus v1.3.2

Version 1.3.2

Bug Fixes

• Fixed Ray dependency issue for MetaCerberus-lite, or when Ray is not available.

MetaCerberus v1.3.1

Version 1.3.1

New Features

• created "lite" version.
  • removed hard dependency requirements, failing more gracefully to make some dependencies optional
  • added linear override for Ray when Ray is not found
• Implemented PyHMMER
• Implemented Pyrodigal
• Implemented Pyrodigal-gv
• Added ORF start and end to output summary files
• Improved speed in creating final GFF files
• Fixed dependency checking for lite version
• Made N removal optional
• Improved Genbank output

Bug Fixes

• Fixed prodigal-gv GFF
• Fixed some Phanotate bugs
• Fixed bug with --protein option
• Fixed crash when GFF is not present
• Other minor bug fixes

MetaCerberus v1.3.0

Release 1.3.0

New Features

-Custom download location for databases
-Ability to download individual databases
-Update downloaded databases (currently re-downloads the database)
-List available databases
-Custom database support
-HMM file with .hmm extension (also supports .hmm.gz)
-A TSV file is also required with minimum columns: ID, Function
-The ID field must match the NAME field of the HMM file, one row per HMM entry
-Output files
-reworked output directories to separate graphs/stats from annotation files
-Final folder with annotation summary and files in GTF, genbank, GFF, .FAA, .FNA, .FFN
-Other improvements
-Performance improvements
-Improved some error handling and reporting

Bug Fixes

-Multi-domain in summary files
-Individual database summary files contain a line per match found
-The combined summary file lists only the best match based on e-value
-Slurm on cluster with multiple nodes now working
-Filtering algorithm fix (on rare circumstances it would enter an infinite loop)