R Workflow
Nowadays, there seems to be an R package for anything and everything. While this makes starting a project in R seem quick and easy, there are considerations to take into account that will make your life easier in the long run.
Welcome to the QMUL HPC blog¶
Keeping Files Tidy
Files quickly proliferate and need to be kept tidy. It is important that the correct people can access the files, and file systems are well-structured for easy navigation.
A Large Scale Ancestry Study | Living with Machines
Living with Machines is a funded project at The Alan Turing Institute (aka the Turing), bringing together academics from different disciplines, to answer research questions such as how did historical newspapers tell the political landscape, how were accidents in factories reported, how did road and settlement names change, how did people change occupations during the industrial revolution...
Installing R packages more quickly using Ncpus
Installing packages into a personal R library can sometimes take quite a long time, but it doesn't always have to be this way.
Changes to R in August 2023
The ITSR support team have some changes to R and RStudio on Apocrita in August 2023. Some action will be required by users, so please read the below carefully.
New Role at QMUL: Research Community Lead
Hello world, my name is Julita Inca and I am originally from Lima, Peru. I am currently based in London, UK. My professional focus is High Performance Computing (HPC) and Linux.
Going to the HPC-SIG 2023
On Thursday, June 13, I attended the HPC-SIG meeting at the University of Bath which hosted many High Performance Computing (HPC) specialists in the UK. The event was hybrid, so there were international attendees as well as those from the UK.
Pythonic Parallel Processing for HPC: Your Gauss is as good as mine
There are many strategies and tools for improving the performance of Python code, for a comprehensive treatment see High Performance Python by Gorelick and Ozsvald (institutional access is available to QM staff). However, there are some subtleties when using them in an HPC environment. More bluntly, requesting processor cores does not automatically mean your code will use them effectively, and that cannot happen if it doesn't know how many of them there are!
Intel Inspector 2022.2 on Apocrita
As the complexity of HPC applications increases, the management of memory and threading scopes becomes increasingly important. Tools like Intel Inspector are crucial in this context, to effectively identify and resolve a wide array of memory errors and thread synchronisation issues.
Creating and Using Private Modules
Modules are the centralised method of accessing different software on an HPC cluster. By using a variety of modules you can quickly and easily access different versions of applications and create work flows that suit particular projects. The modules offered on Apocrita cover a wide range of applications but there will always be situations that require something unusual or a relatively niche version of a piece of software.