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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