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Phase 0 cleanup: remove dead links (P0.1) — drop Services, Downtime, Globally installed software heading, Domain specific software on B4Fcluster, Lustre PFS layout, Bioinformatics tips tricks workflows, Manual GitLab; redirect old log_in_to_B4F_cluster ref to Log in to Anunna (via update-page on MediaWiki MCP Server)
 
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The Agrogenomics cluster is a [http://en.wikipedia.org/wiki/High-performance_computing High Performance Compute] (HPC) infrastructure hosted by [http://www.wageningenur.nl/nl/activiteit/Opening-High-Performance-Computing-cluster-HPC.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 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.  


The Agrogenomics HPC was an initiative of the [http://www.breed4food.com/en/breed4food.htm Breed4Food] (B4F) consortium, consisting of the [[About_ABGC | Animal Breeding and Genomics Centre]] (WU-Animal Breeding and Genomics and Wageningen Livestock Research) and four major breeding companies: [http://www.cobb-vantress.com Cobb-Vantress], [https://www.crv4all.nl CRV], [http://www.hendrix-genetics.com Hendrix Genetics], and [http://www.topigs.com TOPIGS]. Currently, in addition to the original partners, the HPC (HPC-Ag) is used by other groups from Wageningen UR (Bioinformatics, Centre for Crop Systems Analysis, Environmental Sciences Group, and Plant Research International) and plant breeding industry (Rijk Zwaan).
= About =
 
* [[History of the Cluster|Historical information on the startup of Anunna]]
 
== Access Policy ==
[[Access_Policy | Main Article: Access Policy]]
 
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.
 
= Our Courses and Tutorials =
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.
 
* [[Linux Basic]]
* [[HPC Basic]]
* [[HPC Advanced]]
* [[2026 Course dates]]
* [[Tutorials]]
 
= Using Anunna =
* [[Tariffs |Costs associated with resource usage]]
 
== Getting support ==
* [[Support|Get support with using Anunna (open a ticket with the HPC team)]]
 
== Gaining access to Anunna==
Access to the cluster and file transfer are traditionally done via [http://en.wikipedia.org/wiki/Secure_Shell SSH and SFTP].
* [[Log_in_to_Anunna | Logging into cluster using ssh]]
* [[file_transfer | File transfer options]]
* [[Filesystems | Data storage methods on Anunna]]
 
== Using Anunna for courses (mainly jupyter notebooks) ==
* [[steps_for_courses | Steps involved to run a course on Anunna]]
= Events =


== Events ==
* [[Courses]] that have happened and are happening
* [[Courses]] that have happened and are happening
* [[Downtime]] that will affect all users
* [[Meetings]] that may affect the policies of Anunna
* [[Meetings]] that may affect the policies of the HPC
 
= Software =
* [[Modules]]
* [[Apptainer]]
* [[Python]]
* [[R]]
* [[Julia]]


== Using the HPC-Ag ==
== Browser apps ==
=== Gaining access to the HPC-Ag ===
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.
Access to the cluster and file transfer are done by [http://en.wikipedia.org/wiki/Secure_Shell ssh-based protocols].
* [[log_in_to_B4F_cluster | Logging into cluster using ssh and file transfer]]
* [[Services | Available features and services on the HPC]]


== Access Policy ==
* [[General overview|General Overview]]
[[Access_Policy | Main Article: Access Policy]]
* [[Anunna Shell Access]]
* [[Using the File browser|File Browser]]
* [[Jupyter]]
* [[RStudio|R Studio]]
* [[Linux desktop|Linux Desktop]]
* [[Requesting new software|Requesting New Software]]


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. Depending on availability of queues ('partitions') granted to a user, priority to the system's resources is regulated. Note that the use of the HPC-Ag is not free of charge. List price of CPU time and storage, and possible discounts on that list price for your organisation, can be retrieved from CAT-AGRO or FB-ICT.
== Command-line Software ==


=== Cluster Management Software and Scheduler ===
==== Cluster Scheduler ====
The HPC-Ag uses Bright Cluster Manager software for overall cluster management, and Slurm as job scheduler.
Anunna uses Slurm as job scheduler.
* [[BCM_on_B4F_cluster | Monitor cluster status with BCM]]
* [[Using_Slurm | Submit jobs with Slurm]]
* [[SLURM_on_B4F_cluster | Submit jobs with Slurm]]
* [[node_usage_graph | Be aware of how much work the cluster is under right now with 'node_usage_graph']]
* [[node_usage_graph | Be aware of how much work the cluster is under right now with 'node_usage_graph']]
* [[SLURM_Compare | Rosetta Stone of Workload Managers]]


=== Installation of software by users ===
==== [[ABGC_modules |ABGC specific modules]] ====


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


=== Installed software ===
= Useful Notes =  
 
* [[Globally_installed_software | Globally installed software]]
* [[ABGC_modules | ABGC specific modules]]


=== Being in control of Environment parameters ===
== Being in control of Environment parameters ==


* [[Using_environment_modules | Using environment modules]]
* [[Using_environment_modules | Using environment modules]]
* [[Aliases and local variables]]
* [[Setting local variables]]
* [[Setting local variables]]
* [[Setting_TMPDIR | Set a custom temporary directory location]]
* [[Setting_TMPDIR | Set a custom temporary directory location]]
* [[Installing_R_packages_locally | Installing R packages locally]]
* [[Installing_R_packages_locally | Installing R packages locally]]
* [[Setting_up_Python_virtualenv | Setting up and using a virtual environment for Python3 ]]
* [[Setting_up_Python_virtualenv | Setting up and using a virtual environment for Python3 ]]
* [[Locale_settings]] (how numbers and dates are displayed)


=== Controlling costs ===
== Controlling costs ==


* [[SACCT | using SACCT to see your costs]]
* [[SACCT | using SACCT to see your costs]]
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== Management ==
== Management ==
[[HPC_management | Main Article: HPC 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.


Project Leader of the HPC is Stephen Janssen (Wageningen UR,FB-IT, Service Management). [[User:lith010 | Jan van Lith (Wageningen UR,FB-IT, Infrastructure)]] and [[User:dawes001 | Gwen Dawes (Wageningen UR, FB-IT, Infrastructure)]] are responsible for [[Maintenance_and_Management | Maintenance and Management]].
* [[Roadmap | Ambitions regarding innovation, support and administration of Anunna ]]


== Miscellaneous ==
= Miscellaneous =
* [[Mailinglist | Electronic mail discussion lists]]
* [[Parallel_R_code_on_SLURM | Running parallel R code on SLURM]]
* [[History_of_the_Cluster | Historical information on the startup of the HPC]]
* [[Monitoring_executions | Monitoring job execution]]
* [[Bioinformatics_tips_tricks_workflows | Bioinformatics tips, tricks, and workflows]]
* [[Shared_folders | Working with shared folders in the Lustre file system]]
* [[Convert_between_MediaWiki_and_other_formats | Convert between MediaWiki format and other formats]]
* [[Old_binaries | Running older binaries on the updated OS]]
* [[Manual GitLab | GitLab: Create projects and add scripts]]
* [[locale_settings | How to change language settings for yourself]]


== See also ==
= See also =
* [[Maintenance_and_Management | Maintenance and Management]]
* [[Maintenance_and_Management | Maintenance and Management]]
* [[BCData | BCData]]
* [[Mailinglist | Electronic mail discussion lists]]
* [[About_ABGC | About ABGC]]
* [[Computer_cluster | High Performance Computing @ABGC]]
* [[Lustre_PFS_layout | Lustre Parallel File System layout]]


== External links ==
= External links =
{| width="90%"
{| width="90%"
|- valign="top"
|- valign="top"
| width="30%" |
| width="30%" |
* [http://www.breed4food.com/en/show/Breed4Food-initiative-reinforces-the-Netherlands-position-as-an-innovative-country-in-animal-breeding-and-genomics.htm Breed4Food programme]
* [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]
* [http://www.wageningenur.nl/en/Expertise-Services/Facilities/CATAgroFood-3/CATAgroFood-3/Our-facilities/Show/High-Performance-Computing-Cluster-HPC.htm CATAgroFood offers a HPC facilty]
* [http://www.cobb-vantress.com Cobb-Vantress homepage]
 
| width="30%" |
* [https://www.crv4all.nl CRV homepage]
* [http://www.hendrix-genetics.com Hendrix Genetics homepage]
* [http://www.topigs.com TOPIGS homepage]
| width="30%" |
| width="30%" |
* [http://en.wikipedia.org/wiki/Scientific_Linux Scientific Linux]
* [http://en.wikipedia.org/wiki/Scientific_Linux Scientific Linux]
* [http://en.wikipedia.org/wiki/Help:Cheatsheet Help with editing Wiki pages]
* [http://en.wikipedia.org/wiki/Help:Cheatsheet Help with editing Wiki pages]
|}
|}

Latest revision as of 08:37, 16 June 2026

Anunna is a High Performance Computer (HPC) infrastructure hosted by 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.

About

Access Policy

Main Article: Access Policy

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.

Our Courses and Tutorials

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.

Using Anunna

Getting support

Gaining access to Anunna

Access to the cluster and file transfer are traditionally done via SSH and SFTP.

Using Anunna for courses (mainly jupyter notebooks)

Events

  • Courses that have happened and are happening
  • Meetings that may affect the policies of Anunna

Software

Browser apps

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.

Command-line Software

Cluster Scheduler

Anunna uses Slurm as job scheduler.

ABGC specific modules

Installation of software by users

Useful Notes

Being in control of Environment parameters

Controlling costs

Management

Product Owner of Anunna is Alexander van Ittersum (Wageningen UR,FB-IT, C&PS). Fons Prinsen (Wageningen UR, FB-IT, C&PS) is responsible for Maintenance and Management of the cluster.

Miscellaneous

See also

External links

Retrieved from "https://wiki.anunna.wur.nl/index.php?title=Main_Page&oldid=2738"