Hands On Introduction to HPC for Life Scientists
Dates: 29 November - 1 December 2017
Location: EPCC at University of Edinburgh
Lecture Slides
Unless otherwise indicated all material is Copyright © EPCC, The University of Edinburgh, and is only made available for private study.
Day 1
- Introduction BioExcel
- PRACE, ARCHER and EPCC training
- Course Overview, Syllabus and Timetable
- Why HPC?
- Parallel Programming Patterns
- Measuring Parallel Performance
- Building Blocks: Software (Operating Systems, Processes, Threads)
- Building Blocks: Hardware (Processors, Cores, Memory, and Accelerators)
Day 2
- Parallel Programming Models
- HPC Architectures
- Batch Systems & Parallel Application Launchers
- Compilers and Building Software
- Parallel Libraries
Day 3
- Pipelines and Workflows
- The UK HPC and EU HPC Landscapes
- The Future of HPC
- Conclusions
Course Chat
https://paper.dropbox.com/doc/Hands-on-Introduction-to-HPC-for-Life-Scientists-c1aKwPygz1iYViePVgNQIThe Chat page is a live collaborative online document, hosted by Dropbox, which we will use to share links, information and comments. All course participants are encouraged to contribute.
Exercise Material
Unless otherwise indicated all material is Copyright © EPCC, The University of Edinburgh, and is only made available for private study.
Practical 1: Sequence Alignment
Practical 2: Fractal
Practical 3: Molecular Dynamics
Interactive Access
If you are having to wait a long time for jobs to run, you can try following these instructions to gain direct interactive access to an ARCHER node.
