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eResearch Support
Cluster Documentation
Otago Research Computing
Getting Started
Getting Started
Research Cluster (Aoraki)
Access
Access
Access Overview
Getting an Account
SSH
Logging in to OnDemand (Web)
VSCode on Aoraki
Account and Allocation Management
Account and Allocation Management
Project Management
Viewing Current Status
Cluster Traffic
Cluster Traffic
Current Utilisation
Queue and Availability
Software
Software
OnDemand
OnDemand
Open OnDemand Overview
Available Apps
OnDemand HPC Desktop
Using the OnDemand File Manager
Accessing the Shell through OnDemand
Applications
Applications
4ti2
AFNI (Analysis of Functional NeuroImages)
AlphaFold
Alphafold3
Ansys Fluent
Bohra
CCP4
Circlator
GLOBEClaritas
ColabFold
Connectome Workbench
Crystal
DeepLabCut
DeepPoseKit
Dorado
fMRIPrep (Containerised)
FSL
Gaussian
Gubbins
Guppy (GPU)
HUMAnN 3.0
Macaulay2
Mathematica
MATLAB
Ollama
OpenPose
ORCA
PyTorch via module
R and RStudio
Samtools
Space Ranger
TBProfiler
Whisper (speech-to-text)
xdsguI
Software environments
Software environments
Apptainer (Singularity)
Conda/Mamba
Using Modules (LMOD)
renv (R Package Environments)
SBGrid
Shells (bash, zsh, fish, tcsh)
Spack
Python virtual environments
Running Jobs
Running Jobs
Running Jobs
Interactive Jobs
Interactive Jobs
Interactive Jobs
Interactive Sessions from the Command Line
Batch Jobs
Batch Jobs
Slurm Quickstart
Job Script Options
Example Job Scripts
Example Job Scripts
Array Jobs
Using a GPU with Slurm
Dependent Jobs
Using Python with Slurm
Using R with Slurm
Heterogeneous Jobs
Workflows
Workflows
Nextflow
Job Efficiency
General
General
Announcements
Announcements
July 2026 Maintenance
April 2026 Maintenance
January 2026 Maintenance
September 2025 Maintenance
April 2025 Maintenance
November 2024 Maintenance
Guidelines
Guidelines
Login Node Usage
Reasonable Usage
Storage Guidelines
FAQ
FAQ
Access and Login
Why Is My Job Not Starting?
Why Did My Job Fail?
GPU Questions
Storage and Quotas
Sharing and Moving Data
Software and Environments
Support
Storage
Storage
Storage Overview
Data Locations
Data Locations
Homes
Projects
Weka
Otago HCS
Data Transfer
Data Transfer
Data Transfer Overview
Globus
Globus registration
rclone
scp or rsync
Storage Request
File Permissions
Other Services
Other Services
Hosted
Hosted
CryoSPARC
Database hosting
Large Language Models (LLMs)
ai.uod (Open WebUI)
SAS Studio
Shinyproxy
Audio/Video Speech-to-Text Transcription & Translation
Translation
Cloud Native
Cloud Native
Function-as-a-Service (FaaS)
Training
Training
Workshops
Samtools
ΒΆ
Samtools 1.20 is natively installed for all users
Terminal
samtools
--version