It appears like the kneaddata step of the wmgx or wmgx_wmtx workflows can’t be run against non-human databases, is that correct? If I use the --qc-options="–reference-db /location/" to specify the mouse database instead of the human database (like I would using kneaddata) I get an error that says:
"Unable to find database KNEADDATA_DB_HUMAN_GENOME. This is the KneadData bowtie2 database of the human genome. This database can be downloaded with Knead Data. Unable to find in default install folders or with environment variable.
I also get an error if I use a workflows environmental variable to specify the mouse genome instead of using the kneaddata variable.
Is there anyway to run these pipelines using the mouse genome in the KneadData step?