Repository for materials used at the Baskerville Training workshop held for our partners at The Rosalind Franklin Institute and Diamond Light Source.
Day 1 - Harwell Innovation Centre
| Time | Name | Description | Duration | Instructor | Helper |
|---|---|---|---|---|---|
| 11:00 - 12:00 | Intro to Baskerville HPC | Introduction to the cluster, logging in | 1h | Jenny | Simon |
| 12:00 - 13:00 | Lunch | – | 1h | – | – |
| 13:00 - 14:00 | RELION (part 1) | Presentation and Practical demo | 1h | Dimitrios | Gavin |
| 14:00 - 14:15 | Break | – | 15m | – | – |
| 14:15 - 15:15 | RELION (part 2) | Practical demo | 1h | Gavin | Dimitrios |
| 15:15 - 15:30 | Break | – | 15m | – | – |
| 15:30 - 16:00 | Data Transfers with Globus | Logging in, GUI, Globus Connect Personal | 30m | James | Jenny |
| Time | Name | Description | Duration | Instructor | Helper |
|---|---|---|---|---|---|
| 9:00 - 9:30 | Morning Coffee | – | 30m | – | – |
| 9:30 - 10:30 | Interactive Jobs (srun) |
Using SLURM and the basics of scheduling, resource requests, module loading | 1h | Gavin | Simon |
| 10:30 - 10:45 | Break | – | 15m | – | – |
| 10:45 - 12:00 | Non-Interactive Batch Jobs (sbatch) |
Using SLURM and the basics of scheduling, resource requests, module loading | 1h15m | James | Jenny |
| 12:00 - 13:00 | Lunch | – | 1h | – | – |
| 13:00 - 13:30 | Intro to Profiling | Presentation | 30m | Jenny | Gavin |
| 13:30 - 14:30 | Self-installed software with pip and using containers |
Self-installed Python environments and using apptainer |
1h | Simon | James |
| 14:30 - 14:45 | Break | – | 15m | – | – |
| 14:45 - 15:45 | Intro to Baskerville Portal | Introduction to GUI, conda environments |
1h | Jenny | Gavin |
| 15:45 - 16:00 | Wrap-up and close | Signposts to further resources, getting support from the Baskerville RSE service, and feedback | 15m | James | Simon |
2023-11-27-RFI-DLS-training
├── LICENSE.md
├── README.md
├── docs
│ ├── 01-intro-to-baskerville-hpc
│ ├── 02-RELION
│ ├── 03-data-transfers-with-globus
│ ├── 04-interactive-jobs
│ ├── 05-batch-jobs
│ ├── 06-intro-to-profiling
│ ├── 07-pip-and-containers
│ └── 08-baskerville-portal
├── img
└── src
├── 01-intro-to-baskerville-hpc
├── ...For technical user support, email us at [email protected]
This work is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.
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