Galaxy Server administration

Resources related to configuration and maintenance of Galaxy servers

Material

Core

These are the core, foundational topics for the majority of administration in Galaxy.

Lesson Slides Hands-on
Galaxy from an administrator's point of view
Ansible
Galaxy Installation with Ansible

Further Learning

These topics will let you further expand your knowledge. They all build upon what you learned in the core topics, and many expect that you have a setup identical to the one started in the core trainings.

Lesson Slides Hands-on
Connecting Galaxy to a compute cluster
Data Libraries
Distributed Object Storage
Enable upload via FTP
External Authentication
Galaxy Monitoring with gxadmin
Galaxy Monitoring with Reports
Galaxy Monitoring with Telegraf and Grafana
Galaxy Tool Management with Ephemeris
Mapping Jobs to Destinations
Reference Data with CVMFS
Running Jobs on Remote Resources with Pulsar
Training Infrastructure as a Service (TIaaS)
Upgrading Galaxy
Use Singularity containers for running Galaxy jobs

Other


Assorted other tutorials

Lesson Slides Hands-on
Advanced customisation of a Galaxy instance
Automation with Jenkins
Controlling Galaxy with systemd or Supervisor
Deploying a compute cluster in OpenStack via Terraform
Docker and Galaxy
Empathy
Galactic Database
Galaxy Database schema
Galaxy Installation on Kubernetes
Galaxy Interactive Tools
Galaxy Monitoring
Galaxy on the Cloud
Galaxy Troubleshooting
Gearing towards production
Managing Galaxy on Kubernetes
Reference Data with CVMFS without Ansible
Reference Genomes in Galaxy
Server Maintenance and Backups
User, Group and Quota managment
uWSGI

Frequently Asked Questions

Common questions regarding this topic have been collected on a dedicated FAQ page . Common questions related to specific tutorials can be accessed from the tutorials themselves.

Maintainers

This material is maintained by:

AvatarBjörn GrüningAvatarMartin ČechAvatarHelena RascheAvatarSimon Gladman

For any question related to this topic and the content, you can contact them or visit our Gitter channel.

Contributors

This material was contributed to by:

Valentin MarconNate CoraorBjörn GrüningHelena RascheMartin ČechSaskia HiltemannGianmauro CuccuruBérénice BatutLucille DelisleNicola SoranzoHans-Rudolf HotzPablo MorenoEnis AfganNuwan GoonasekeraAlex MahmoudSergey GolitsynskiySimon GladmanAnthony BretaudeauDaniel BlankenbergAbdulrahman AzabMarius van den BeekTorfinn NomeMatthias Bernt