package checkv results in final output results

[papanikos]

Hello,

According to the checkv.nf there are several calls to checkv's functionality. However, I am only getting the final summary stats for quality in the <prefix>_contigs_quality_summary.tsv .

The rest of the tsvs and viruses.fna can be traced back to the workdir of the checkv_wf job, but this seems a bit convoluted and not secure - I like to remove the workdir after a complete execution since it grows big.

These files can be quite helpful if one is interested in finding regions, prophages etc.

I believe it would make sense to also bundle them together in a results/raw_data/checkv_results_<prefix>.tar.gz, similar to the rest of the tools output.

[replikation]

• seems resonable to add this results/raw_data/checkv_results_<prefix>.tar.gz
• thanks for the suggestions we keep ypu updated