Rfam website

Get a local installation of Rfam website using Docker and the public Rfam MySQL database.

Development

Clone this repository, then start docker:

docker-compose up

The Rfam site should be available at http://0.0.0.0:3000.

By default the website connects to the public Rfam database but an alternative database can be specified in config/rfamweb_local.conf (ignored by git).

Docker cheat sheet

# list running docker containers
docker ps

# login to running container from another terminal
docker exec -it rfamweb bash

Testing wiki updates

# login to running container
perl PfamScripts/wiki/sync_articles_cron.pl -c RfamWeb/config/wiki.conf
perl PfamScripts/wiki/update_cron.pl        -c RfamWeb/config/wiki.conf
perl PfamScripts/wiki/scrape_cron.pl        -c RfamWeb/config/wiki.conf

Testing sequence search results

Examples:

• http://127.0.0.1:3000/search/sequence/D8DFBEE8-B719-11E6-A6D1-7304307CE5B7
• http://127.0.0.1:3000/search/sequence/187279F8-2B4E-11E7-BA5A-5513307CE5B7