galaxy-genome-annotation / chado-schema-builder

compiles copies of the Chado database and dumps the SQL for use in other tools.

Chado Schema Builder

This project provides a dockerfile to automatically build the chado database dumps. These schema dumps are necessary due to how much time and memory the process of parsing ontologies takes. For older machines such as the author's aging infrastructure, installing the 5 default ontologies can take upwards of 8 hours. Installing a dumped .sql.gz from this project takes under 20 seconds, and can even be done "live" during docker launches.

Running

make
make schema

The container is set up and ready to run. As soon as you launch an instance of this container, it will bring up the postgres database, start processing (you may wish to customize)

LICENSE

GPLv3

(This does not preclude you customising a copy of this, producing output, and not sharing the customisations to the main program.)