If you followed this introductory section, you should:

• Have a $VIROME variable set to the path of the data, so that you should see the input files if you:

ls -l $VIROME

• Have the databases inside the $DB bookmark.

ls -l $DB

You should see the two directories, one for genomad and one for checkv.

• Have seqfu running in your VM:

seqfu version

• Preferably, use tmux to keep the session safe from network glitches.