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Anunna is a [http://en.wikipedia.org/wiki/High-performance_computing High Performance Computer] (HPC) infrastructure hosted by [https://www.wur.nl/en/show/supercomputer-anunna-opens-up-more-opportunities-for-data-storage-and-artificial-intelligence-applications.htm Wageningen University & Research Centre]. It is open for use for all WUR research groups as well as other organizations, including companies, that have collaborative projects with WUR.  
Anunna is a [http://en.wikipedia.org/wiki/High-performance_computing High Performance Computing] (HPC) cluster hosted by [https://www.wur.nl/ Wageningen University & Research]. It is open to all WUR research groups, and to other organisations and companies running collaborative projects with WUR.


= About =
You reach the cluster over [[SSH Access|SSH]] at <code>login.anunna.wur.nl</code>, or through your browser at the [[Apps Portal]] (https://apps.anunna.wur.nl/).


* [[History of the Cluster|Historical information on the startup of Anunna]]
== [[About]] ==
* <h3>[[Mission and Governance]]</h3> What Anunna is for and who runs it
* <h3>[[Roadmap]]</h3> How we decide what to work on
* <h3>[[Cluster Architecture Overview]]</h3> How the cluster is put together
* <h3>[[Compute_Hardware_Overview]]</h3> The node types and their hardware
* <h3>[[Storage Systems Overview]]</h3> The storage tiers at a glance
* <h3>[[Tariffs]]</h3> Costs of using Anunna
* <h3>[[Network & Security]]</h3> Interconnect and data-security posture
* <h3>[[History of the Cluster]]</h3> How Anunna came to be
* <h3>[[Sustainability]]</h3> Green-HPC policy and measures
* <h3>[[FAQ]]</h3> Frequently Asked Questions
* <h3>[[Policies and Terms of Use]]</h3> Who may use Anunna and on what terms
*


== Access Policy ==
== [[Get Started]] ==
[[Access_Policy | Main Article: Access Policy]]
* <h3>[[Who Can Access?]]</h3> Eligibility
* <h3>[[Account Application Process]]</h3> How to request an account
* <h3>[[User Responsibilities]]</h3> What is expected of you as a user
* <h3>[[SSH Access]]</h3> Logging in over SSH to the cluster
* <h3>[[Apps Portal]]</h3> Using applications on Anunna through your web browser
* <h3>[[Workflow Migration from Laptop to HPC]]</h3> Moving your work to the cluster from your computer
* <h3>[[Grant_Support_%26_Acknowledgement|Grant support & Acknowledgement]]</h3> Guidance and standard text that can be used in grant proposals, research papers, theses and other publications.


Access needs to be granted actively (by creation of an account on the cluster by FB-IT). Use of resources is limited by the scheduler. Note that the use of Anunna is not free of charge.
== [[System Access]] ==
* <h3>[[Login Nodes]]</h3> The entry point you connect to
* <h3>[[Compute Nodes]]</h3> Where your jobs run, and how to reach them
* <h3>[[Filesystems]]</h3> The storage tiers
* <h3>[[Quotas]]</h3> Storage limits and how to check them
* <h3>[[Remote Access (VPN, Gateway)]]</h3> Reaching Anunna from off campus
* <h3>[[Data Transfer Methods]]</h3> Moving data to and from Anunna


= Our Courses and Tutorials =
== [[Scheduling|Job Scheduling and Resource Management]] ==
The Anunna team organizes HPC courses three times a year to strengthen basic & more advanced skills and enable users to make the most effective use of our facility.
* <h3>[[Scheduler Overview (Slurm)]]</h3> How scheduling works
* <h3>[[Partitions / Queues]]</h3> The available partitions
* <h3>[[Choosing a node (constraints)]]</h3> Targeting particular hardware
* <h3>[[Batch Jobs]]</h3> Submitting a batch script
* <h3>[[Interactive Jobs]]</h3> An interactive shell on a compute node
* <h3>[[Array Jobs]]</h3> Running many similar jobs at once
* <h3>[[Monitoring Jobs]]</h3> Checking on your jobs
* <h3>[[Cancelling Jobs]]</h3> Stopping a job
* <h3>[[Reservations]]</h3> Reserving nodes
* <h3>[[Fair Use Policy]]</h3> Using shared resources considerately


* [[Linux Basic]]
== [[Software]] ==
* [[HPC Basic]]
* <h3>[[Software Overview]]</h3> The software landscape
* [[HPC Advanced]]
* <h3>[[Environment Modules]]</h3> Loading software with modules and buckets
* [[2026 Course dates]]
* <h3>[[Installing Personal Software]]</h3> Installing into your own space
* [[Tutorials]]
* <h3>[[Licensed Software]]</h3> Software that needs a licence


= Using Anunna =
* <h3>Scripting languages</h3>
* [[Tariffs |Costs associated with resource usage]]
** <h4>[[Python]]</h4> Python modules and environment managers
** <h4>[[R]]</h4> R modules, packages, and parallel R jobs
** <h4>[[Julia]]</h4> Loading Julia, packages, and running it in a job


== Getting support ==
* <h3>Containers</h3>
* [[Support|Get support with using Anunna (open a ticket with the HPC team)]]
** <h4>[[Apptainer]]</h4> Portable, reproducible containers for HPC


== Gaining access to Anunna==
* <h3>MPI implementations</h3>
Access to the cluster and file transfer are traditionally done via [http://en.wikipedia.org/wiki/Secure_Shell SSH and SFTP].
** <h4>[[OpenMPI]]</h4> The MPI library Anunna is built around
* [[log_in_to_B4F_cluster | Logging into cluster using ssh]]
** <h4>[[IntelMPI]]</h4> Intel MPI, with the Intel compilers and MKL
* [[file_transfer | File transfer options]]
* [[Services | Alternative access methods, and extra features and services on Anunna]]
* [[Filesystems | Data storage methods on Anunna]]


== Using Anunna for courses (mainly jupyter notebooks) ==
== [[Storage]] ==
* [[steps_for_courses | Steps involved to run a course on Anunna]]
* <h3>[[Storage Systems Overview]]</h3> The storage tiers at a glance
* <h3>[[Home Directory]]</h3> Your personal space
= Events =
* <h3>[[Compute Storage]]</h3> The fast Lustre filesystem for active work
* <h3>[[Shared Storage]]</h3> Sharing data within a group
* <h3>[[Backup Policy]]</h3> What is backed up, and what is not
* <h3>[[Archival Storage]]</h3> Long-term storage on tape
* <h3>[[Quotas]]</h3> Storage limits
* <h3>[[Data Lifecycle Policy]]</h3> How data moves from active to archived to removed
* <h3>[[Data storage best practices|Data Storage Best Practices]]</h3> Keeping data safe, tidy, and cheap
* <h3>[[Data Transfer Best Practices]]</h3> Moving data efficiently and reliably
* <h3>[[Handling Sensitive Data (GDPR, etc.)]]</h3> Confidential and personal data


* [[Courses]] that have happened and are happening
== Graphical Interface Applications ==
* [[Downtime]] that will affect all users
* <h3>[[Portal Overview]]</h3> What the portal is and how the dashboard is laid out
* [[Meetings]] that may affect the policies of Anunna
* <h3>[[Running GUI Applications]]</h3> The general way to launch and connect to a graphical application
* <h3>[[How to Launch a Desktop Session]]</h3> Start a full Linux desktop in your browser
* <h3>[[Jupyter]]</h3> Jupyter notebooks
* <h3>[[RStudio]]</h3> The RStudio IDE for R and Python
* <h3>[[File Browser]]</h3> Manage your files in the browser
* <h3>[[Shell Access]]</h3> A terminal in the browser
* <h3>[[Jobs Queue Overview]]</h3> See your jobs in the browser


= Software =
== [[Training]] ==
* [[Modules]]
* <h3>[[Training Materials]]</h3> Course slides and self-study resources
* [[Apptainer]]
* <h3>[[Tutorials]]</h3> Hands-on tutorials
* [[Python]]
* <h3>[[Workshops]]</h3> Instructor-led courses and their dates
* [[R]]  
* [[Julia]]


== Browser apps ==
== [[Support]] ==
This page provides an overview of the GUI-based applications available Anunna, including background information and practical guidance on how to access and use interactive desktops and graphical tools directly from your web browser.
* <h3>[[How to Get Help]]</h3> Who to contact and how
* <h3>[[Support Ticket System]]</h3> The WUR support portal
* <h3>[[Reporting Incidents]]</h3> Writing a good problem report
* <h3>[[Known Issues]]</h3> Current problems and workarounds
* <h3>[[Our User community]]</h3> The Anunna user community
* <h3>[[Maintenance Schedule]]</h3> Planned downtimes


* [[General overview|General Overview]]
== [[For PIs]] ==
* [[Anunna Shell Access]]
* <h3>[[Dos and Don'ts]]</h3> Good and bad practice at a glance
* [[Using the File browser|File Browser]]
* <h3>[[Managing Group Members]]</h3> Working with groups
* [[Jupyter]]
* <h3>[[Storage Requests]]</h3> Requesting more storage
* [[RStudio|R Studio]]
* <h3>[[Resource Allocation Requests]]</h3> Requesting larger or dedicated allocations
* [[Linux desktop|Linux Desktop]]
* <h3>[[External Collaborator Access]]</h3> Giving access to collaborators outside WUR
* [[Requesting new software|Requesting New Software]]
* <h3>[[Reporting Usage]]</h3> Tracking your group's usage and costs
* <h3>[[Grant Support & Acknowledgement]]</h3> Facility descriptions and support for funding applications


== Command-line Software ==
== [[Workflows]] ==
* <h3>[[Workflow Migration from Laptop to HPC]]</h3> Moving your work to the cluster
* <h3>[[Reproducibility Guidelines]]</h3> Keeping your work reproducible
* <h3>[[Workflow Engines (Snakemake, Nextflow)]]</h3> Managing multi-step pipelines
* <h3>[[Debugging Jobs]]</h3> Working out why a job failed
* <h3>[[Checkpointing]]</h3> Saving and restarting long jobs
* <h3>[[Scheduled tasks (cron)|Scheduled Tasks (cron)]]</h3> Running recurring tasks with scrontab


==== Cluster Scheduler ====
* <h3>Parallel Workflows</h3>
Anunna uses Slurm as job scheduler.
** <h4>[[Workflows/Parallel-Computing|Parallel Computing]]</h4> What parallel computing means on Anunna, and which type fits your work
* [[Using_Slurm | Submit jobs with Slurm]]
** <h4>[[Workflows/Serial|Serial]]</h4> One program on a single core — the baseline
* [[node_usage_graph | Be aware of how much work the cluster is under right now with 'node_usage_graph']]
** <h4>[[Workflows/Embarassinly-Parallel|Embarrassingly Parallel]]</h4> Running the same program many times over
* [[SLURM_Compare | Rosetta Stone of Workload Managers]]
** <h4>[[Workflows/Multi-threaded|Multi-threaded]]</h4> Many cores on one machine, within a single process
** <h4>[[Workflows/Multi-Process|Multi-Process]]</h4> One calculation spread across several machines


==== [[Globally installed software]] ====
== Quick links ==


==== [[ABGC_modules |ABGC specific modules]] ====
* [[How to Get Help]] — contact the HPC team
* [[Maintenance Schedule]] — planned downtimes
* [[Glossary of Terms]] — common HPC and Anunna terms explained


==== Installation of software by users ====
== External links ==
* [[Domain_specific_software_on_B4Fcluster_installation_by_users | Installing domain specific software: installation by users]]
* [[Setting local variables]]
* [[Installing_R_packages_locally | Installing R packages locally]]
* [[Setting_up_Python_virtualenv | Setting up and using a virtual environment for Python3 ]]
* [[Virtual_environment_Python_3.4_or_higher | Setting up and using a virtual environment for Python3.4 or higher ]]
* [[Installing WRF and WPS]]
* [[Running scripts on a fixed timeschedule (cron)]]


= Useful Notes =
* [https://www.wur.nl/en/Value-Creation-Cooperation/Facilities/Wageningen-Shared-Research-Facilities/Our-facilities/Show/High-Performance-Computing-Cluster-HPC-Anunna.htm Wageningen Shared Research Facilities — HPC]
 
== Being in control of Environment parameters ==
 
* [[Using_environment_modules | Using environment modules]]
* [[Aliases and local variables]]
* [[Setting local variables]]
* [[Setting_TMPDIR | Set a custom temporary directory location]]
* [[Installing_R_packages_locally | Installing R packages locally]]
* [[Setting_up_Python_virtualenv | Setting up and using a virtual environment for Python3 ]]
* [[Locale_settings]] (how numbers and dates are displayed)
 
== Controlling costs ==
 
* [[SACCT | using SACCT to see your costs]]
* [[get_my_bill | using the "get_my_bill" script to estimate costs]]
 
== Management ==
Product Owner of Anunna is Alexander van Ittersum (Wageningen UR,FB-IT, C&PS). [[User: prins089 | Fons Prinsen (Wageningen UR, FB-IT, C&PS)]] is responsible for [[Maintenance_and_Management | Maintenance and Management]] of the cluster.
 
* [[Roadmap | Ambitions regarding innovation, support and administration of Anunna ]]
 
= Miscellaneous =
* [[Bioinformatics_tips_tricks_workflows |Bioinformatics tips, tricks, and workflows]]
* [[Parallel_R_code_on_SLURM | Running parallel R code on SLURM]]
* [[Convert_between_MediaWiki_and_other_formats | Convert between MediaWiki format and other formats]]
* [[Manual GitLab | GitLab: Create projects and add scripts]]
* [[Monitoring_executions | Monitoring job execution]]
* [[Shared_folders | Working with shared folders in the Lustre file system]]
* [[Old_binaries | Running older binaries on the updated OS]]
* [[locale_settings | How to change language settings for yourself]]
 
= See also =
* [[Maintenance_and_Management | Maintenance and Management]]
* [[About_ABGC | About ABGC]]
* [[Computer_cluster | High Performance Computing @ABGC]]
* [[Lustre_PFS_layout | Lustre Parallel File System layout]]
 
= External links =
{| width="90%"
|- valign="top"
| width="30%" |
* [https://www.wur.nl/en/Value-Creation-Cooperation/Facilities/Wageningen-Shared-Research-Facilities/Our-facilities/Show/High-Performance-Computing-Cluster-HPC-Anunna.htm SRF offers a HPC facilty]
| width="30%" |
* [http://en.wikipedia.org/wiki/Scientific_Linux Scientific Linux]
* [http://en.wikipedia.org/wiki/Help:Cheatsheet Help with editing Wiki pages]
|}

Latest revision as of 06:49, 31 August 2026

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

Get Started

System Access

Job Scheduling and Resource Management

Software

  • 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

Graphical Interface Applications

Training

Support

For PIs

Workflows

Retrieved from "https://wiki.anunna.wur.nl/index.php?title=Main_Page&oldid=3181"