Open Call

MONC By Selina Aragon, Communications Officer, in conversation with Adrian Hill, Met Office

This article is part of our series: Breaking Software Barriers, in which we investigate how our Research Software Group has helped projects improve their research software. If you would like help with your software, get in touch.

Adrian Hill, the project’s primary contact, talked to us about the usefulness of the Institute’s collaboration with the Met Office and EPCC to promote the uptake and development of MONC. Adrian especially highlighted the invaluable help he received from Mike Jackson, Research Software Engineer, in setting up the basis for what has progressed into successful software with unexpected benefits and long-term value, used by researchers as well as PhD and masters' students.

Collaborative efforts

In collaboration with EPCC (Edinburgh Parallel Computing Centre) and the Met Office, the Institute provided help to rewrite the Large Eddy simulation model (LEM) as its successor, the Met Office NERC cloud (MONC). MONC is a complete re-engineering of LEM, which preserves LEM's underlying science. MONC has been developed to provide a flexible community model that can exploit modern supercomputers…

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Weather forecastingBy Malcolm Illingworth, Software Consultant, Software Sustainability Institute

The Software Sustainability Institute have been working with the Institute of Climate and Atmospheric Science (ICAS) at the University of Leeds, to help improve the sustainability of their GLOMAP software suite. Kirsty Pringle of ICAS applied for consultancy from the Institute via the Open Call.

One of the biggest challenges in our ability to understand and predict climate change is learning about the role played by tiny particles, such as dust or soot. These aerosol particles are known to influence our climate in complex ways, but how this interaction works is an open area of research.

The Institute of Climate and Atmospheric Science (ICAS) at the University of Leeds  seeks to improve our understanding of how these aerosol particles affect our climate. Their research uses both computer-based climate models and uncertainty analysis to quantify the role that natural aerosols play in climate change. As part of this research, ICAS have developed the GLOMAP model, a flexible…

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View of the 260 tonne water tank that will house the LZ experiment
View of the 260 tonne water tank that will house the LZ
experiment, located 1 mile underground in Davis Cavern of
the Sanford Underground Research Facility, South Dakota.
Credit: Carlos Faham, Berkeley Lab.

By Mike Jackson, Software Sustainability Institute

85% of the mass of the Universe is made up of dark matter. Despite indirect evidence of the existence of dark matter, going all the way back to the early 20th century, there has, so far, been no direct measurement of dark matter interacting with a detector here on Earth. Not yet at least, for the LUX-ZEPLIN (LZ) project are building the largest and most sensitive dark matter detector of its type ever constructed. I will be providing consultancy to LZ’s researchers at University College London on migrating LZ’s data storage and analysis software from Microsoft Excel to a database-centred solution.

The LUX-ZEPLIN project is a consortium of 230 scientists in 37 institutions in the U.S., U.K., Portugal, Russia, and Korea and is joint-funded by the US Department of Energy and the UK Science and Technologies Facilities Council (STFC). LZ are building their dark matter detector a mile underground in the…

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Automated assembly line

By Mike Jackson, Software Sustainability Institute

Continuous integration frameworks build and test our software, so we don't have too (well, we do, but they do it too!) As part of my work on automated testing to boost recipy's confidence, I've had my first experience of AppVeyor, a continuous integration service for Windows, and it was good!

Growing up in Scotland, I endured an oft-repeated peak and trough of emotion when watching BBC television. A new drama or comedy would be trailed by an enthusiastic announcer, anticipation would rise at the forthcoming delights, only to be dashed upon the rocks of the announcer's concluding words "...except for viewers in Scotland". I've noticed a similar trait in the world of research software where phrases such as "...except for Windows" or "...except for Internet Explorer" occur frequently enough to be noticeable, along with their fellow "works on Linux/UNIX", leaving "Windows" unsaid. So, having used Travis CI, a deservedly-popular Linux-based open source continuous integration framework for projects hosted on GitHub, it was refreshing to see that there's a similar service for Windows, AppVeyor.

I'd first used Travis CI when…

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Loudspeaker.jpg“Better Science through Superior Software” – C. Titus Brown

The Open Call is a free service that allows researchers to propose joint software consultancy projects with the Institute. We accept submissions from any discipline, and are particularly keen to attract applications from BBSRC and ESRC funding areas.

The most recent call closed on 29 April 2016, and will reopen in 2018.

It helps researchers who wish to improve their software, their development practices, and their community of users and contributors.

Who do we work with?

Since 2010 we have worked with over 50 projects from across all disciplines. If you want to know more about the kind of work we do in the Open Call, take a look at our who do we work with page.

The Software Sustainability Institute has expertise in every aspect of the use and development of research software, which means that the Open Call is flexible. We work with all disciplines, from computational biology to nuclear fusion, and projects from all funding agencies. We work with both software experts and beginners. We help mature projects and projects that are only just starting out. Our projects generally last between two and six months.

What can we do to help your project?

We can provide advice and effort from our experts…

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Briefcases_0.jpgAs we complete work with projects, we will write up each project as a case study. The case studies are short, focussed on achievements and easily the best way in which to see the kind of work that we do - and how we could work with your project.

If you would like to discuss working with the Software Sustainability Institute, please contact us.

Infrastructure and project management

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Cuneiform tabletWe are working with the RTI-VIPS project to simplify the deployment process for their Reflectance Transformation Imaging software, packaging these complex components into an installer designed for use by researchers in the humanities. This will help to overcome a key deployment barrier faced by the software's users, including researchers from the British Museum and the Louvre.

The RTI-VIPS programme serves to provide solutions that employ Reflectance Transformation Imaging techniques to capture the reflectance properties of a given surface. Multiple captures are taken with varying light sources to construct an interactive relit record of the material sampled. Cultural heritage examples of the technology include work on cuneiform tablets, numismatic archives, manuscripts, rock art and lithic artifacts.

Simplicity!

The RTI-VIPS software is comprised of a number of software packages that handle the acquisition and viewing of images, the calculation of reflectance properties, and camera management and calibration.

The software developers, based within the Web and Internet Science Research Group at the University of Southampton, want to investigate more convenient methods to deploy the software components required to operate the system. Currently the installation process is manual and comprises numerous steps…

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CloudsBy Mike Jackson, Software Architect.

We're helping EPCC and the Met Office promote the uptake, and ongoing development, of the Met Office NERC cloud (MONC) model within the atmospheric sciences community. We're assessing how easy it is to deploy MONC, helping set up a MONC virtual machine and advising on setting up resources for engaging with and supporting researchers.

At the Met Office weather and climate are predicted using numerical models, in particular, the Unified Model (UM). The UM is run on super-computers to produce high spatial resolution forecasts (1 km) for the UK. The details of forecasts are valuable for many public institutions and companies.

A vital tool for the development and testing of the UM is the Met Office Large Eddy simulation model (LEM). The LEM is used to simulate atmospheric phenomena, such as fog, clouds and deep convection at very high resolutions (10 to 100 s metres). The LEM was first developed in the early 90s and parallelised in the mid-1990s. While it can be argued that science undertaken with the LEM underpins many of the atmospheric parameterisations in the UM, the LEM can no longer capitalise on supercomputer enhancements, as the code structure and…

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Clouds We're helping EPCC and the Met Office promote the uptake, and ongoing development, of the Met Office NERC cloud (MONC) model within the atmospheric sciences community. We're assessing how easy it is to deploy MONC, helping set up a MONC virtual machine and advising on setting up resources for engaging with and supporting researchers.

Modelling clouds for weather forecasting

The UK Met Office uses software to create its weather forecasts. This software simulates the behaviour of weather using complex mathematical models. These models can use information about past weather to forecast future weather. The Met Office's best known weather model is the Unified Model (UM), which generates national and international forecasts down to a scale of 1 kilometre. The Met Office also has a number of other models that concentrate on specific aspects of weather. One of these is the Large Eddy Simulation model (LEM) which models clouds, atmospheric flows and turbulence.

The LEM has been developed over the past 30 years. But, it is now showing its age and LEM's performance does not significantly improve if run on more than 512 processes whereas many modern super-computers have tens of thousands of processors. A consequence of this limitation is that the UK atmospheric sciences community relies on…

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The Institute's Open Call provides the opportunity for UK researchers to gain software development expertise and effort - for free.

The latest round of the Call has just opened, and we invite research projects from any discipline who would like help with the development of their software to make a submission, and are particularly keen to attract applications from BBSRC and ESRC funding areas. The deadline for submissions is April 29th 2016.

For more information on the Open Call and to submit an application, please visit the Open Call page. You can also find out more about our current and past projects.

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