Galaxy Helm chart: a standardized method for deploying production Galaxy servers

Nuwan Goonasekera ¹, Alexandru Mahmoud ², Keith Suderman ³

⁰Australian BioCommons, University of Melbourne, Melbourne, VIC 3052, Australia.

Bioinformatics +

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August 6, 2024

View abstract on PubMed

Summary

A new Galaxy Helm chart simplifies deploying production-grade Galaxy for data-intensive sciences. This method offers rapid, scalable, and maintainable installations on Kubernetes, reducing administrative burden.

Area Of Science

Bioinformatics
Computational Biology
Data Science

Background

Galaxy is a popular open-source framework for data-intensive sciences.
Production-grade Galaxy installations are complex and require significant administration.
There is a need for rapid, reproducible, and maintainable Galaxy deployment.

Purpose Of The Study

To describe the Galaxy Helm chart for simplified Galaxy deployment.
To provide a rapid and reproducible method for installing production-grade Galaxy.
To enable high-availability Galaxy instances with minimal maintenance.

Main Methods

Developed a Galaxy Helm chart to package all components of a production-grade Galaxy installation.
Designed the chart for deployment on Kubernetes clusters.
Encapsulated supporting software services and implemented best practices for running Galaxy.

Main Results

The Galaxy Helm chart is the most rapid method for deploying scalable, production-grade Galaxy instances.
The chart is highly configurable, allowing for customization of dependent services.
Notable applications include automated deployments on AnVIL and as an AWS-recommended solution.

Conclusions

The Galaxy Helm chart significantly simplifies the deployment and maintenance of Galaxy for data-intensive sciences.
This solution addresses the need for rapid, reproducible, and high-availability Galaxy installations.
The chart is available for use in various scientific computing environments.