An Introduction to High Performance Computing for Biologists Using CREATEInfo Location Attendee Categories Contact More Info Event Information
DescriptionCourse Description: Many research projects of biomedical interest involve the processing of extensive collections of big data files, which is often impractical on standard desktop computers. This workshop introduces the use of high-performance computing (HPC) systems such as CREATE. At the end of the workshop participants will have familiarity with the Linux command line and an understanding of the key features of an HPC system. The course will be structured in an interactive approach, alternating between lectures, discussion and extended hands-on activity. Live demos will use the HPC cluster, where multiple users compete for its finite resources. The demonstrators will guide you in its use and explain how resources are allocated to users and tasks. The first day will introduce Linux to newcomers, enabling them to use its command line and perform simple tasks such as navigating the system without the use of a graphical interface. During the second day participants will learn how to effectively use a computer cluster – e.g. manipulating files and directories, writing and running scripts, logging into the cluster, transferring data and checking data integrity. Learning objectives:
Event Location
Attendee CategoriesAny KCL Staff/Student
Additional ItemsContactMore InformationTarget audience: The course is aimed at graduate students, post-grad and other researchers with little or no experience of command-line interfaces and computer clusters.
Workshop format: Students will bring their own laptops. This will allow them to store notes and scripts, as well as enabling them to carry out hands-on analysis.
Requirements:
A) Installing the Unix shell on Windows Computers with Windows operating systems do not automatically have a Unix shell program installed. We encourage you to use an emulator included in Git for Windows (https://git-for-windows.github.io/ ) which gives you access to both Bash shell commands and Git. This is available also on KCL SOE machines via the software center. Once installed, you can open a terminal by running the program Git Bash from the Windows start menu. B) Installing the Unix shell on MacOS For a Mac computer running macOS Mojave or earlier releases, the default Unix Shell is Bash. For a Mac computer running macOS Catalina or later releases, the default Unix Shell is Zsh. Your default shell is available via the Terminal program within your Utilities folder. To open Terminal, try one or both of the following: In Finder, select the Go menu, then select Utilities. Locate Terminal in the Utilities folder and open it. Use the Mac 'Spotlight' computer search function. Search for: Terminal and press Return. C) Installing the Unix shell on Linux Both the terminal and Git should be installed by default. The default Unix Shell for Linux operating systems is usually Bash. On most versions of Linux, it is accessible by running the (Gnome) Terminal or (KDE) Konsole or xterm, which can be found via the applications menu or the search bar. If your machine is set up to use something other than Bash, you can run it by opening a terminal and typing bash.
| |||||||||||||||
