Development

Running tests

make test

Running an individual test

perl -Mlib=lib t/90_curs_annotation_check.t

Internals

Canto uses two separate SQLite schemas. There is a main one called "track" that holds information that is used by all curation sessions. It contains things like:

• the list of publications and their triage statuses
• all the ontology data
• the gene list (if genes aren't coming from an external source like Uniprot)
• curator details (user names, email addresses, ORCIDs)
• the list of curation sessions
• links between curators and curation sessions

The track database schema is here: https://github.com/pombase/canto/blob/master/etc/track.sql

Each curation session has it's own small SQLite database that is created when the session is created. It contains session specific information like:

• which genes have been added to the session
• allele and genotype details
• annotation
• organisms and strains for the session

The schema for the session databases is called "curs", short for "CURation Session". The definition is here: https://github.com/pombase/canto/blob/master/etc/curs.sql