Michael Roach

Error code on successful finish

6

The program throws an exit code 1 instead of 0 when it fails to find any prophage regions.

https://github.com/chg60/DEPhT

add-host is failing on mask_host

3

I managed to replicate the issue: ```text Error in rule mask_host: jobid: 1 input: GCF_010909765.2_sAmbRad1.1.pri_genomic.ndrop.fna, hecatomb.out/processing/temp/yeet.sam.gz output: hecatomb.out/processing/temp/yeet.processed.fasta, /home/mike/miniconda3/envs/hecatomb/lib/python3.10/site-packages/hecatomb/snakemake/workflow/../databases/host/yeet/masked_ref.fa.gz log: hecatomb.out/stderr/mask_host.log (check log file(s) for error details) conda-env: /home/mike/miniconda3/envs/hecatomb/lib/python3.10/site-packages/hecatomb/snakemake/conda/c9790800272e0e3eb4a18b1640a733bc_ shell:...