- Add the options "--skip_evaluate" and "--skip_analyze" to dereplicate
3.3.1
- Update parse_stb.py to allow a list of genomes as the .fasta input in --reverse mode
3.3.0
- Set default S_algorithm to fastANI and sa to 0.95 - Run Prodigal in "single" mode - If using multiround_primary_clustering, yell if not also tertiary_clustering
3.2.2
- Better timing prediction when using fastANI
3.2.1
- clusterAlg is now used to cluster the initial groups when doing mutliround_primary_clustering (before it was always "single") - fixed a bug that happened when you ran skipSecondary with centW > 0 (https://github.com/MrOlm/drep/issues/120)
3.2.0
- checkM can now be run in groups (added argument variable "checkm_group_size") - other slight internal restructuring around how checkM works - a little more info added to the "troubleshooting dRep" section