Adrian Viehweger

Thank you! But how would I translate the above example into a query (which has to be a single string, right?) -- just concatenate the strings in the dict above?

awesome! do I need to use this predictor class for both, index construction AND query? @logan-markewich

hm. likely I'm not catching the case when there are no results in this step -- could you send me the corresponding genome to replicate?

what error msg do you get? what genome are you using as input?

Ok this error occurs when there are no prophages found in the genome. Will catch this error in the next release, thx for reporting.

how much RAM do you have?

you can pass `nextflow run ... --maxram 8 ...` to limit this, see https://github.com/phiweger/uv/blob/main/workflows/processes/uv.nf#L21 the protein search is the (brute force and) most computationally intensive step; on my laptop (16...

doesn't nextflow give you the time it took to run?

https://github.com/phiweger/uv/blob/main/workflows/processes/uv.nf#L243 bedtools is missing from `env.yml`, my bad. thanks for spotting. can you add and rerun?

haha, now I still need to fix that