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
slides
Ansible
slides / video tutorial
Galaxy Installation with Ansible
slides / video tutorial

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
slides / video tutorial
Data Libraries
slides / video tutorial
Distributed Object Storage
slides tutorial
External Authentication
slides tutorial
Galaxy Monitoring with gxadmin
slides / video tutorial
Galaxy Monitoring with Reports
tutorial
Galaxy Monitoring with Telegraf and Grafana
slides / video tutorial
Galaxy Tool Management with Ephemeris
slides tutorial
Mapping Jobs to Destinations
tutorial
Reference Data with CVMFS
slides / video tutorial
Running Jobs on Remote Resources with Pulsar
slides tutorial
Training Infrastructure as a Service (TIaaS)
tutorial
Use Singularity containers for running Galaxy jobs
tutorial

Other


Assorted other tutorials

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

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:

Björn GrüningBjörn Grüning Martin ČechMartin Čech Helena RascheHelena Rasche Simon GladmanSimon 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 MarconValentin Marcon Nate CoraorNate Coraor Björn GrüningBjörn Grüning Helena RascheHelena Rasche Martin ČechMartin Čech Saskia HiltemannSaskia Hiltemann Gianmauro CuccuruGianmauro Cuccuru Bérénice BatutBérénice Batut Nicola SoranzoNicola Soranzo Hans-Rudolf HotzHans-Rudolf Hotz Pablo MorenoPablo Moreno Enis AfganEnis Afgan Nuwan GoonasekeraNuwan Goonasekera Alex MahmoudAlex Mahmoud Sergey GolitsynskiySergey Golitsynskiy Simon GladmanSimon Gladman Anthony BretaudeauAnthony Bretaudeau Daniel BlankenbergDaniel Blankenberg Abdulrahman AzabAbdulrahman Azab Marius van den BeekMarius van den Beek Torfinn NomeTorfinn Nome Matthias BerntMatthias Bernt