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Anunna is a High Performance Computing (HPC) cluster hosted by Wageningen University & Research. It is open to all WUR research groups, and to other organisations and companies running collaborative projects with WUR.

You reach the cluster over SSH at login.anunna.wur.nl, or through your browser at the Apps Portal (https://apps.anunna.wur.nl/).

About

• Mission and Governance

  What Anunna is for and who runs it

• Roadmap

  How we decide what to work on

• Cluster Architecture Overview

  How the cluster is put together

• Compute_Hardware_Overview

  The node types and their hardware

• Storage Systems Overview

  The storage tiers at a glance

• Tariffs

  Costs of using Anunna

• Network & Security

  Interconnect and data-security posture

• History of the Cluster

  How Anunna came to be

• Sustainability

  Green-HPC policy and measures

• FAQ

  Frequently Asked Questions

• Policies and Terms of Use

  Who may use Anunna and on what terms

Get Started

• Who Can Access?

  Eligibility

• Account Application Process

  How to request an account

• User Responsibilities

  What is expected of you as a user

• SSH Access

  Logging in over SSH to the cluster

• Apps Portal

  Using applications on Anunna through your web browser

• Workflow Migration from Laptop to HPC

  Moving your work to the cluster from your computer

• Grant support & Acknowledgement

  Guidance and standard text that can be used in grant proposals, research papers, theses and other publications.

System Access

• Login Nodes

  The entry point you connect to

• Compute Nodes

  Where your jobs run, and how to reach them

• Filesystems

  The storage tiers

• Quotas

  Storage limits and how to check them

• Remote Access (VPN, Gateway)

  Reaching Anunna from off campus

• Data Transfer Methods

  Moving data to and from Anunna

Job Scheduling and Resource Management

• Scheduler Overview (Slurm)

  How scheduling works

• Partitions / Queues

  The available partitions

• Choosing a node (constraints)

  Targeting particular hardware

• Batch Jobs

  Submitting a batch script

• Interactive Jobs

  An interactive shell on a compute node

• Array Jobs

  Running many similar jobs at once

• Monitoring Jobs

  Checking on your jobs

• Cancelling Jobs

  Stopping a job

• Reservations

  Reserving nodes

• Fair Use Policy

  Using shared resources considerately

Software

• Software Overview

  The software landscape

• Environment Modules

  Loading software with modules and buckets

• Installing Personal Software

  Installing into your own space

• Licensed Software

  Software that needs a licence

• Scripting languages

  • Python

    Python modules and environment managers

  • R

    R modules, packages, and parallel R jobs

  • Julia

    Loading Julia, packages, and running it in a job

• Containers

  • Apptainer

    Portable, reproducible containers for HPC

• MPI implementations

  • OpenMPI

    The MPI library Anunna is built around

  • IntelMPI

    Intel MPI, with the Intel compilers and MKL

Storage

• Storage Systems Overview

  The storage tiers at a glance

• Home Directory

  Your personal space

• Compute Storage

  The fast Lustre filesystem for active work

• Shared Storage

  Sharing data within a group

• Backup Policy

  What is backed up, and what is not

• Archival Storage

  Long-term storage on tape

• Quotas

  Storage limits

• Data Lifecycle Policy

  How data moves from active to archived to removed

• Data Storage Best Practices

  Keeping data safe, tidy, and cheap

• Data Transfer Best Practices

  Moving data efficiently and reliably

• Handling Sensitive Data (GDPR, etc.)

  Confidential and personal data

Graphical Interface Applications

• Portal Overview

  What the portal is and how the dashboard is laid out

• Running GUI Applications

  The general way to launch and connect to a graphical application

• How to Launch a Desktop Session

  Start a full Linux desktop in your browser

• Jupyter

  Jupyter notebooks

• RStudio

  The RStudio IDE for R and Python

• File Browser

  Manage your files in the browser

• Shell Access

  A terminal in the browser

• Jobs Queue Overview

  See your jobs in the browser

Training

• Training Materials

  Course slides and self-study resources

• Tutorials

  Hands-on tutorials

• Workshops

  Instructor-led courses and their dates

Support

• How to Get Help

  Who to contact and how

• Support Ticket System

  The WUR support portal

• Reporting Incidents

  Writing a good problem report

• Known Issues

  Current problems and workarounds

• Our User community

  The Anunna user community

• Maintenance Schedule

  Planned downtimes

For PIs

• Dos and Don'ts

  Good and bad practice at a glance

• Managing Group Members

  Working with groups

• Storage Requests

  Requesting more storage

• Resource Allocation Requests

  Requesting larger or dedicated allocations

• External Collaborator Access

  Giving access to collaborators outside WUR

• Reporting Usage

  Tracking your group's usage and costs

• Grant Support & Acknowledgement

  Facility descriptions and support for funding applications

Workflows

• Workflow Migration from Laptop to HPC

  Moving your work to the cluster

• Reproducibility Guidelines

  Keeping your work reproducible

• Workflow Engines (Snakemake, Nextflow)

  Managing multi-step pipelines

• Debugging Jobs

  Working out why a job failed

• Checkpointing

  Saving and restarting long jobs

• Scheduled Tasks (cron)

  Running recurring tasks with scrontab

• Parallel Workflows

  • Parallel Computing

    What parallel computing means on Anunna, and which type fits your work

  • Serial

    One program on a single core — the baseline

  • Embarrassingly Parallel

    Running the same program many times over

  • Multi-threaded

    Many cores on one machine, within a single process

  • Multi-Process

    One calculation spread across several machines

Quick links

• How to Get Help — contact the HPC team
• Maintenance Schedule — planned downtimes
• Glossary of Terms — common HPC and Anunna terms explained

External links

• Wageningen Shared Research Facilities — HPC