|ABOVE: The EOSCpilot project will support the first phase in the development of the European Open Science Cloud. IMAGE: eoscpilot.eu|
|Click to enlarge: the Photon Neutron Data Science Demonstrator. IMAGE: eoscpilot.eu|
|Sune Rastad Bahn (top) and Thomas Holm Rod of the ESS DMSC. PHOTO: ESS|
European Open Science Cloud (EOSC) Pilot Project
Two years from January 17, 2017
Total EU/EC funding: €9.95 million
Led by: Science & Technology Facilities Council (STFC, UK)
A European initiative to support the first development phase the European Open Science Cloud (EOSC) received 9.9 MEUR in funding through the EC’s Horizon 2020 program. The two-year EOSCpilot project connects 33 partner organisations from 11 countries to establish the foundations of the EOSC.
Sune Rastad Bahn, ESS group leader for Data Systems and Technology at the Data Management & Software Centre (DMSC), is involved in the project in two ways: as part of a group defining the EOSC service portfolio, and as part of a science demonstrator using the same services for analysing photon and neutron data.
The service portfolio work package will demonstrate that diverse science cases can be enabled through a coherent portfolio of EOSC services that are drawn from and built upon existing national and European e-infrastructures and initiatives. The future EOSC service portfolio should enable researchers from all disciplines to have seamless, open access to the advanced digital capabilities, resources and expertise they need to collaborate and to carry out data- and computing-intensive science.
The science demonstrator work package will:
Computational Methods for Analyzing Self-Assembly with Time-Resolved SANS/SAXS
Four Years from August 1, 2017
Total VR funding: 5 921 160,00 SEK
Of which to ESS: 1 995 000,00 SEK
Led by: Lund University
This project will be led by Ingemar André from the Department of Biochemistry and Structural Biology, Lund University. The other partners in the project are Najet Mahmoudi from ISIS, STFC, and Wojciech Potrzebowski and Thomas Holm Rod from the European Spallation Source (DMSC). Moreover, a post doc will be recruited in the project.
Conceptual figure from the DMSC proposal to VR: Virus capsid assembly closeup. A) An hypothetical assembly pathway of cowpea chlorotic motile virus (CCMV) capsid. B) The high-resolution structure of the fully formed capsid determined using X-ray crystallography (PDB code: 1AZ7). C) Single-stranded RNA encapsulated in the inner shell of CCMV.
Molecular self-assembly is a central concept in chemistry, soft matter physics and biology. In biology, the spontaneous association of smaller building blocks into more complex functional assemblies – membranes, folded proteins and protein complexes – is key to understanding life processes at the molecular level.
In this project we aim to develop a computational method to analyze time-resolved Small Angle Neutron Scattering (TR-SANS) data from studies of biological self-assembly processes. The method builds upon a Bayesian probabilistic modeling framework that enable determination of detailed molecular self-association pathways with limited overfitting to experimental data.
A second aim is to make the methodology available for the neutron scattering user community by implementing the methodology into existing software for modeling and analysis of SANS data, e.g. SASview.
The third aim is to develop an experimental framework for recording TR-SANS data for studying the self-assembling of virus protein capsids. Data from this framework will be analyzed with the newly developed computational methods to illustrate the power of the framework and to advance our understanding of virus biology.
A New Method to Model the Dynamic Structure Factor by Molecular Dynamics
Four Years from April 1, 2017
Total VR funding: 6 020 250,00 SEK
Of which to ESS: 460 000,00 SEK
Led by: Chalmers University of Technology
This project will be led by Jan Swenson from the Department of Physics, Chalmers University of Technology. Other partners are Heloisa N. Bordallo from the Niels Bohr Institute, University of Copenhagen, Anders Markvardsen from the STFC ISIS neutron source in the UK, and Thomas H. Rod from the European Spallation Source DMSC. A post doc will be recruited in the project.
The aim of this project is to overcome the challenge with interpreting and understanding inelastic and quasielastic neutron scattering data by developing a new computer modelling method to model the dynamic structure factor. The dynamic structure factor will be calculated from molecular dynamics simulation where the interatomic potentials will be changed until a quantitative agreement is obtained between the calculated S(Q,w) and the measured S(Q,w). Hence, the method is a dynamical correspondence to the Empirical Potential Structure Refinement (EPSR) method used to produce structural models of materials in quantitative agreement with neutron and x-ray diffraction data.
It is foreseen that this new approach will have the same significant impact on understanding the dynamics of materials as EPSR has had for understanding the structure of materials and it will thus be possible to obtain a deeper understanding of how the macroscopic properties of materials depend on the molecular motions in them of importance for the development of new materials.
It is the aspiration that not only the neutron spectroscopy user community will benefit significantly from this new method but also that the computer simulation community will get a unique possibility to refine model potentials on the basis of neutron spectroscopy.
Chalmers University of Technology to support and collaborate with ESS on development of a tool for modeling chemical order in materials studied with neutron diffraction
The aim of this two-year collaboration between the Erhart Group and the Data Analysis and Modelling Group at ESS is to exploit one another’s strengths in modelling and software development, respectively, to make the software tools developed by the Erhart Group accessible to a much wider user community, including the future users of ESS. Additionally, the goal is to make it possible for third-party developers to contribute to the software by improving the user experience, adding new functionalities, converting the software to open-source software and employing best practice software development methodologies.
Countless materials of technological importance as well as fundamental interest exhibit some form of chemical ordering. Both metal and semiconductor alloys are prototypical examples but there are also less obvious cases such as clathrates and other Zintl compounds, cobaltates, or skudderudites.
In all of these materials at least two different components compete for equivalent sites, the occupation of which is determined by a complex interplay of entropy and energy. While the former drives the system toward disorder, attractive interactions between species provide a counter force, which leads to ordering. The distribution of the constituents of a material on the microscopic scale often has direct implications for the macroscopic response including but not limited to mechanical, thermal, catalytic, electrical, and magnetic properties and it is thus vital to understand these mechanisms in order to understand the properties of a material and how to develop novel materials.
While experimental techniques, such as neutron diffraction, can yield tremendous insight, they still require models and assumptions in order to interpret the results.
Over the course of the last years, the Erhart Group at Chalmers University of Technology has developed software based on the so-called cluster expansion and compressive sampling techniques and is currently employing these codes to study chemical ordering in inorganic clathrates, the coupling between transport properties and order, alloying of nanoparticles, and refractory alloys.
- dmsc_grants_2017_pdf.pdf1.89 MB pdf