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Created 3 years ago by Ewan Roche

Updated 3 years ago by Ewan Roche

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Optimisation, Profiling and Debugging

Profiling Tools

Introduction This tutorial will guide you how to run intel profiling tools in AMD processors, we...

DCSR? Kesako?

How to access the clusters

I'm a PI and would like to use the clusters - what do I do?

How do I ask for help?

Recovering deleted files?

Curnagl

Curnagl - 2022

Storage on Curnagl

Jura

Urblauna

How to run a job on Curnagl

What projects am I part of and what is my default account?

Providing access to external collaborators

Requesting and using GPUs

How do I run a job for more that 3 days?

Access NAS DCSR from the cluster

SSH connection to DCSR cluster

Checkpoint SLURM jobs

Urblauna access and data transfer

Jura to Urblauna Migration

Job Templates

Urblauna Guacamole / RDP issues

Urblauna migration

Transfer files to/from Curnagl

DCSR Software Stack

Old software stack

Compiling and running MPI codes

MATLAB on the clusters

Using Conda and Anaconda

Using Mamba to install Conda packages

Deep Learning with GPUs

AlphaFold

R on the clusters (old)

R on the clusters

Software local installation

DCSR GitLab service

Running Busco

SWITCHfilesender from the cluster

Filetransfer from the cluster

CryoSPARC

Sandbox containers

Course software for decision trees / random forests

Course software for introductory deep learning

Rstudio on the Curnagl cluster

Rstudio on the Urblauna cluster

JupyterLab on the curnagl cluster

JupyterLab with C++ on the curnagl cluster

Dask on curnagl

Running the Isca framework on the cluster

Running the MPAS framework on the cluster

Run OpenFOAM codes on Curnagl

Compiling software using cluster libraries

Course software for Image Analysis with CNNs

Course software for Text Analysis with LLMs

Profiling Tools

DCSR Courses

Optimisation, Profiling and Debugging

Profiling Tools

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