Welcome to the DeepThought HPC

The new Flinders University HPC is called DeepThought. This new HPC comprises of AMD EPYC based hardware and next-generation management software, allowing for a dynamic and agile HPC service.

Attention

The new BeeGFS Parallel Filesystem mounted at /cluster has just been deployed, and is now ready for usage. It will appear in any disk usage listings on the HPC. For further information please read the /cluster section of the Storage Usage & Guidelines.

Attention

This documentation is under active development, meaning that it can change over time as we improve it. Please email deepthought@flinders.edu.au if you require assistance. We also welcome user contributions to this documentation - contact the same email above so we can grant you access.

Attribution

If you use the HPC to form a part of your research, you should attribute your usage. Flinders has minted a DOI that points to this documentation, specific for the HPC Service. It will also allow for tracking the research outputs that the HPC has contributed to.

Text Citation

The below text citation follows the standard Australian Research Data Commons (ARDC) format for attributing data and software. For more information on this type of attribution, visit the ARDC Data Citation page.

Flinders University (2021). DeepThought (HPC). Retrieved from https://doi.org/10.25957/FLINDERS.HPC.DEEPTHOUGHT

Reference Managers

The following files are provided for integration into your reference manager of choice. To save the file, ‘Right Click -> Save Link As..’.

• BibTex
• EndNote
• RIS

Table of Contents

User Documentation

• Access Requests for DeepThought HPC
• Windows Connection Guide
• Unix Connection Guide
• Storage Overview & Usage Guidelines
• HPC Research Data Flow
• Transferring Files to DeepThought
• Linux Command Line Interface
• HPC Job Data Flow
• SLURM
• The Module System

Software Suites

• Software Suites on DeepThought
• ANSYS Engineering Suite
• Delft3D
• GROMACS
• Jupyter Hub
• LAMMPS
• Mathworks MATLAB
• Singularity Containers
• VASP
• Open Data Cube

Technical Specifications

• Deepthought: System Specifications

FAQ & Known Issues

• FAQ
• Known Issues

Software & Support Policies

• Fair Usage Guidelines
• Storage Usage Guidelines
• Software Support Guidelines
• Upgrade Cycles
• HPC Etiquette

Acknowledgements

We recognise the respect the trademarks of all third-party providers referenced in this documentation. Please see the respective EULAs for software packages used in configuring your own environment based on this knowledgebase.

License

This documentation is released under the Creative-Commons: Attribution-ShareAlike 4.0 International license.