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add change log for v2.2.4
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jiarong committed Jan 18, 2023
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11 changes: 8 additions & 3 deletions Changelog.md
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Expand Up @@ -8,9 +8,14 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
- Check "suspicious" words in each contig: methyltransferase, epimerase, endonuclease
- Mark short jobs as local_rules to optimaize for `virsorter run` --cluster mode
- Add "all" in --include-groups
- Add new cols: final_group, final_score in `final-boundary.tsv`
- Remove records in `final-boundary.tsv` but not in `final-score.tsv`
- Add "PROVIRUS_MIN_HALLMARK_CNT" in `template-config-original.yaml` for tuning prophage search in `provirus.py`.
- Change initial slide window to gene number based (4 genes) from bp size; apply the minimal prophage size at the end.

## [2.2.4] - 2022-01-18
- Fix issues with numpy v1.24 by limiting numpy version <1.24
- Change "singularity" to "apptainer" in `README`
- Add "PROVIRUS_MIN_HALLMARK_CNT" in `template-config-original.yaml` for tuning prophage search in `provirus.py`
- Add new cols: "final_max_score_group" and "final_max_score" in `final-viral-boundary.tsv` to be consistent with "max_score_group" and "max_score" in `final-viral-score.tsv`
- Remove records in `final-viral-boundary.tsv` but not in `final-viral-score.tsv`

## [2.2.3] - 2021-04-20
- Fix `--seqname-suffix-off` regex issues
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