FAQ

Galaxy administration

• How to access the server with SSH
• How to restart Galaxy
• How to get information from the Galaxy logs
• How to add a Server Alert on the welcome page
• [Job management]

Tools

• How to add a new tool [Torfinn, review: Kjetil + Erik]
• How to add a new tool to NeLS Tool Shed [Kjetil, review: XX]
• How to debug a tool that has failed
• How to find the container for a particular tool [Kjetil, review: Torfinn++]
• How to manually build a container image for a tool
• How to update the default container
• How to force a tool to use Conda, and not Singularity

Reference data and CVMFS

• How to add local reference data

Infrastructure playbooks

• How to run Ansible playbooks ToDo: add short description of each playbook and tag
• How to update playbooks
• How to upgrade Galaxy to a new release
• How to grant a new Galaxy Admin SSH access to the servers
• How to update the playbooks to grant a Galaxy user access to the Admin page in Galaxy
• How to edit the welcome page [Kjetil, review: Erik]
• How to make changes to the NeLS style [Kjetil]
• [Which core Galaxy files are replaced with customized substitutions from our playbooks](Which-core-Galaxy-files-are-replaced-with-customized-substitutions-from -our-playbooks)

Fixing problems

• Troubleshooting guide [All]
• How to restore the UseGalaxy.no server from backup