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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.

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.

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Speeding Up Grep Searches

Sometimes you may find yourself needing to filter a large amount of output using the grep command. However, grep can sometimes struggle when you try to filter files with an incredibly large number of lines, as it loads each line into RAM line-by-line. This can mean you can quickly exhaust even large amounts of requested RAM. There are a few ways around this.

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R Tutorial Part Two - R vs RStudio

Following up from part one of our R tutorial we'll be taking a look at the differences between R - the command-line language which can be loaded as a module and used in your Apocrita batch jobs - and Rstudio - the graphical development environment, accessed via a web server and provided via the OnDemand service.

R Tutorial Part One - Top Tips

The ITSR support team often receive tickets from R users that cover similar ground. So we thought we would collate our most frequent responses into some "Top Tips"! The tips below apply equally to Rscript but this article only covers the interactive R program.

Using job statistics to increase job performance and reduce queueing time

You may wonder why some jobs start immediately but some wait in the queue for hours or days, even if your job is quite simple. If you notice your job has been queueing for a while, you may want to consider adjusting the requested resources to reduce queueing time and reduce any potential resource wastage as the job runs. Below, we outline two useful tools for you to check the resource usage of previous jobs.