Taxpasta only accepts a single taxonomy although multiple could be present in database samplesheet

[jfy133]

Description of the bug

Theoretically a user could have a pipeline run that includes one database with e.g. a NCBI taxonomy, and one with a GTDB taxonomy.

Currently taxpasta merge only accepts a single taxonomy from a --param.

We should consider adding another (optional)( column to the database sheet that points to the corresponding tax dump files for each database.

Command used and terminal output

No response

Relevant files

No response

System information

No response

[Midnighter]

Sigh you are perfectly right, of course.

[jfy133]

[jfy133]

In the meantime though we should document this (currently all databases are assumed to have the same taxonomy in usage md) and also that supplying the taxonomy dir is optional