Support Documentation
Data Transfer Best Practices
Initializing search
GitHub
Contact Support
Support Documentation
GitHub
Announcements
Announcements
Autodeletion returning of scratch filesystem
December holiday support restrictions
Identity Changes for Crown Research Institutes
Known Issues HPC3
Release Notes
Release Notes
Getting Started
Getting Started
Creating an Account
Projects
Projects
Applying for a New Project
Adding Members to your Project
Applying to Join a Project
Allocations
Allocations
What is an Allocation?
Allocations & Extensions
Quarterly Allocation Periods
Accessing the HPCs
Accessing the HPCs
Connecting to the Cluster
First Time Login
Port Forwarding
Git Bash (Windows)
MobaXterm Setup (Windows)
Standard Terminal Setup
VSCode
Windows Subsystem for Linux (WSL)
WinSCP/PuTTY Setup (Windows)
X11
Login Troubleshooting
Getting Help
Getting Help
Consultancy
Introduction to computing on the NeSI HPC
Introductory Material
Job efficiency review
Making a Helpful Support Request
System status
Webinars
Weekly Online Office Hours
Wide Area Network
Workshops
Cheat Sheets
Cheat Sheets
Bash: Reference Sheet
Git: Reference Sheet
Slurm: Reference Sheet
tmux: Reference sheet
FAQs
FAQs
Common questions about the platform refresh
Mahuika HPC3 Differences
Can I change my time zone to New Zealand time
Can I use SSHFS to mount the cluster filesystem on my local machine
Converting from Windows style to UNIX style line endings
How busy is the cluster?
How can I give read only team members access to my files
How can I let my fellow project team members read or write my files
How can I view images generated on the cluster
How do I find out the size of a directory
How do I fix my locale and language settings
How do I replace my Additional Authentication Credentials
How do I request memory
How do I run my Python Notebook through SLURM
I've run out of storage space
What are my bashrc and bash profile for
What does oom kill mean
What Is A Trusted Device
What is a core file
What is Multiple Factor Authentication MFA
What software environments are optimised for Machine Learning and data science
Where should I store my data on NeSI systems
Why am I seeing Account is not ready
Why does my program crash
Why is my job taking a long time to start
Policy
Policy
Acceptable Use Policy
Access Policy
Account Requests for non-Tuakiri Members
Acknowledgement, Citation and Publication
Allocation classes
Application Support Model
How we review applications
Institutional allocations
Licence Policy
Merit allocations
Postgraduate allocations
Privacy Policy
Proposal Development allocations
my.nesi.org.nz
my.nesi.org.nz
Logging in to my.nesi.org.nz
Managing notification preferences
Navigating the my.nesi.org.nz web interface
Requesting to renew an allocation via my nesi org nz
The NeSI Project Request Form
Tuakiri Attribute Validator
Release Notes my.nesi.org.nz
Release Notes my.nesi.org.nz
my.nesi.org.nz release notes v2.47.0
my.nesi.org.nz release notes v2.46.0
my.nesi.org.nz release notes v2.45.0
my.nesi.org.nz release notes v2.44.0
my.nesi.org.nz release notes v2.43.0
my.nesi.org.nz release notes v2.42.0
my.nesi.org.nz release notes v2.41.0
my.nesi.org.nz release notes v2.40.0
my.nesi.org.nz release notes v2.39.0
my.nesi.org.nz release notes v2.38.0
my.nesi.org.nz release notes v2.37.0
my.nesi.org.nz release notes v2.36.0
my.nesi.org.nz release notes v2.35.0
my.nesi.org.nz release notes v2.34.0
my.nesi.org.nz release notes v2.33.0
my.nesi.org.nz release notes v2.31.0
my.nesi.org.nz release notes v2.30.0
my.nesi.org.nz release notes v2.29.0
my.nesi.org.nz release notes v2.28.0
my.nesi.org.nz release notes v2.27.0
my.nesi.org.nz release notes v2.26.0
my.nesi.org.nz release notes v2.25.0
my.nesi.org.nz release notes v2.24.0
my.nesi.org.nz release notes v2.23.0
my.nesi.org.nz release notes v2.22.0
my.nesi.org.nz release notes v2.21.0
My nesi org nz release notes v2 20 0
my.nesi.org.nz release notes v2.19.0
my.nesi.org.nz release notes v2.18.0
my.nesi.org.nz release notes v2.17.0
my.nesi.org.nz release notes v2.16.0
my.nesi.org.nz release notes v2.15.0
my.nesi.org.nz release notes v2.14.0
my.nesi.org.nz release notes v2.13.0
my.nesi.org.nz release notes v2.12.0
my.nesi.org.nz release notes v2.11.0
my.nesi.org.nz release notes v2.10.0
my.nesi.org.nz release notes v2.9.0
my.nesi.org.nz release notes v2.8.0
my.nesi.org.nz release notes v2.7.0
my.nesi.org.nz release notes v2.6.0
my.nesi.org.nz release notes v2.5.0
my.nesi.org.nz release notes v2.4.0
my.nesi.org.nz release notes v2.3.0
my.nesi.org.nz release notes v2.2.0
my.nesi.org.nz release notes v2.1.0
my.nesi.org.nz release notes v2.0.3
my.nesi.org.nz release notes v2.0.1
Software
Software
Installing Applications Yourself
Software Installation Request
Software Version Management
Available Applications
Available Applications
ABAQUS
AlphaFold
ANSYS
Apptainer - Containers on HPC
BLAST
BRAKER
CESM
Clair3
COMSOL
Cylc
Delft3D
Dorado
FDS
FlexiBLAS
FreeSurfer
fastStructure
GATK
Gaussian
GROMACS
GUFI
ipyrad
Java
Julia
Keras
LAMMPS
Lambda Stack
MAKER
MATLAB
Miniforge3
Molpro
Nextflow
NWChem
OpenFOAM
OpenSees
ORCA
ont-guppy-gpu
ParaView
Python
R
RAxML
Relion
Supernova
Synda
Snakemake
snpEff
TensorFlow on CPUs
TensorFlow on GPUs
Trinity
VASP
VirSorter
VTune
WRF
Containers
Containers
NVIDIA GPU Containers
Run an executable under Apptainer in parallel
Run an executable under Apptainer on GPU
Parallel Computing
Parallel Computing
Parallel Computing
Configuring Dask-MPI jobs
Hyperthreading
Job Arrays
MPI Scaling Example
Multithreading Scaling Example
OpenMP settings
Thread Placement and Thread Affinity
Profiling and Debugging
Profiling and Debugging
Debugging
Finding Job Efficiency
Job Scaling - Ascertaining job dimensions
Profiler: ARM MAP
Profiler: VTune
Slurm Native Profiling
Batch Computing
Batch Computing
Submitting your first job
Hardware
Job prioritisation
SLURM: Best Practice
Using GPUs
Job Checkpointing
Fair Share
Checksums
Checking resource usage
Globus Compute
Job Arrays
Job Limits
Temporary directories
Interactive Computing
Interactive Computing
Slurm interactive sessions
JupyterLab interactive sessions
Marimo interactive sessions
Pluto.ji interactive sessions
Interactive computing with OnDemand
Interactive computing with OnDemand
How-to guide
Apps
Apps
VS Code
Virtual desktop
MATLAB via OnDemand
RStudio via OnDemand
JupyterLab
JupyterLab
Jupyter kernels - Tool-assisted management
Jupyter kernels - Manual management
Troubleshooting
Release Notes
Release Notes
Storage
Storage
Storage Best Practises
File Systems and Quotas
File Systems and Quotas
Filesystems and Quotas
Automatic cleaning of scratch filesystem
Data Compression
File permissions and groups
Data Recovery
Data Recovery
File Recovery
Long Term Storage
Long Term Storage
Freezer long term storage
Configuring s3cmd
Freezer Guide
Other Useful Commands
Troubleshooting
Release Notes freezer.nesi.org.nz
Release Notes freezer.nesi.org.nz
2025/06/23
2025/07/17
2025/08/05
2025/08/26
2025/09/22
2025/10/15
2025/10/29
2025/12/01
Cloud Storage
Cloud Storage
Research Developer Cloud Storage
Data Transfer
Data Transfer
Introduction
Data Transfer Best Practices
OnDemand
File Managers
SCP (Secure Copy)
Rsync
RClone
FileSender
Globus
Globus
Overview of Globus
First Time Setup
Add your Computer to Globus
Data Transfer
Data Transfer Between Two Personal Computers
Bookmarks
Share Collections
Sync'ing with globus-automate
Globus CLI
MobaXterm
WinSCP
Service Subscriptions
Service Subscriptions
Contracts & Billing
Contracts & Billing
Billing process
Types of contracts
Service Governance
Service Governance
Allocation approvals
Service Governance contact
Subscriber Monthly Usage Reports
Pricing
What is a Subscription?
Research Developer Cloud
Research Developer Cloud
User Guides
Data Transfer Best Practices
Back to top