The Oceanographic Multipurpose Software Environment (OMUSE v1.0)

Pelupessy, Inti; Werkhoven, Ben van; Elteren, A. van; Viebahn, Jan; Candy, Adam S.; Zwart, Simon Portegies; Dijkstra, Henk A.

doi:10.5194/gmd-10-3167-2017

Cited by 15 publications

(13 citation statements)

References 47 publications

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“…Rigid implementations have been introduced to simulate planetary systems [42], star clusters [43] and galactic nuclei [18]. We illustrate our implementation as we have realized in the Astrophysical Multipurpose Software Environment (AMUSE) [44,45,40] and in OMUSE [46]. AMUSE is a software environment for astrophysical simulations written in multiple languages but the fundamental structure is based on Python [see 47].…”

Section: Implementation In the Astrophysical Multipurpose Software Enmentioning

confidence: 99%

Non-intrusive hierarchical coupling strategies for multi-scale simulations in gravitational dynamics

Zwart

Pelupessy

Martínez-Barbosa

et al. 2020

Communications in Nonlinear Science and Numerical Simulation

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Hierarchical code coupling strategies make it possible to combine the results of individual numerical solvers into a self-consistent symplectic solution. We explore the possibility of allowing such a coupling strategy to be non-intrusive. In that case, the underlying numerical implementation is not affected by the coupling itself, but its functionality is carried over in the interface. This method is efficient for solving the equations of motion for a self-gravitating system over a wide range of scales. We adopt a dedicated integrator for solving each particular part of the problem and combine the results to a self-consistent solution. In particular, we explore the possibilities of combining the evolution of one or more microscopic systems that are embedded in a macroscopic system. The here presented generalizations of BRIDGE include higher-order coupling strategies (from the classic 2 nd order up to 10 th -order), but we also demonstrate how multiple bridges can be nested and how additional processes can be introduced at the bridge time-step to enrich the physics, for example by incorporating dissipative processesor. Such augmentation allows for including additional processes in a classic Newtonian N -body integrator without alterations to the underlying code. These additional processes include for example the Yarkovsky effect, dynamical friction or relativistic dynamics. Some of these processes operate on all particles whereas others apply only to a subset.The presented method is non-intrusive in the sense that the underlying methods remain operational without changes to the code (apart from adding the get-and set-functions to enable the bridge operator). As a result, the fundamental integrators continue to operate with their internal time step and preserve their local optimizations and parallelism. Multiple bridges can be nested and coupled hierarchically, allowing for the construction of a complex environment of multiple nested augmented bridges. While the coupling topology may become rather complicated, we introduce the hierarchical coupling language (HCL), a meta language in which complex bridge topologies can be described. The meta language is meant for stimulating the discussion on even more complex hierarchies in which the bridge operators are introduced as patternsWe present example applications for several of these cases and discuss the conditions under which these integrators can be applied. Typical applications range over 10 orders of magnitude in temporal and spatial scales when we apply the method to simulating planetary systems (au spatial and year-temporal scale) in a star cluster that orbits in the Galaxy (100 kpc-spatial and 10 Gyr-temporal scale). 2 in a lab experiment or from observations [2]. The exponential growth in computer power [3] and improved expressiveness in computer languages [4] enables researchers to perform ever more complex calculations. At the same time, multi-messenger observations and the gradual increase in the resolution of lab experiments require simulations to include mo...

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Section: Implementation In the Astrophysical Multipurpose Software Enmentioning

confidence: 99%

Non-intrusive hierarchical coupling strategies for multi-scale simulations in gravitational dynamics

Zwart

Pelupessy

Martínez-Barbosa

et al. 2020

Communications in Nonlinear Science and Numerical Simulation

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“…With this hybrid simulation environment, it becomes possible to study multi-physics processes operating on a broad range of length and time scales. Ideas from this environment now percolate to a wider community, including oceanography (OMUSE, [12]), water management and climate science (HyMUSE, see [13]). Since this is a topical collection of papers on multi-scale computing, we will discuss some of the multi-scale aspects of AMUSE, rather than dwell on the multi-physical aspects of the framework.…”

Section: One Code To Bind Them Allmentioning

confidence: 99%

Multi-scale high-performance computing in astrophysics: simulating clusters with stars, binaries and planets

Elteren

Bédorf

Zwart

2019

Phil. Trans. R. Soc. A.

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The demand on simulation software in astrophysics has dramatically increased over the last decades. This increase is driven by improvements in observational data and computer hardware. At the same time, computers have become more complicated to program due to the introduction of more parallelism and hybrid hardware. To keep up with these developments, much of the software has to be redesigned. In order to prevent the future need to rewrite again when new developments present themselves, the main effort should go into making the software maintainable, flexible and scalable. In this paper, we explain our strategy for coupling elementary solvers and how to combine them into a high-performance multi-scale environment in which complex simulations can be performed. The elementary parts can remain succinct while supporting the aggregation to more satisfactory functionality by coupling them on a higher level. The advanced code-coupling strategies we present here allow such a hierarchy and support the development of complex codes. A library of simple elementary solvers subsequently stimulates the rapid development of more complex code that can co-evolve with the latest advances in computer hardware. We demonstrate how to combine several of these elementary solvers in a hierarchical and generic system, and how the resulting complex codes can be applied to multi-scale problems in astrophysics. Our aim is to achieve the best of several worlds with respect to performance, flexibility and maintainability while reducing development time. We succeeded in the development of the hierarchical coupling strategy and the general framework, but a comprehensive library of minimal fundamental-physics solvers is still unavailable. This article is part of the theme issue ‘Multiscale modelling, simulation and computing: from the desktop to the exascale’.

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“…To overcome the problem, OA-SIS4 uses parallelism in its internal algorithms (Redler et al, 2010), and OASIS3- MCT (Craig et al, 2017) interfaced with the Model Coupling Toolkit (MCT; Jacob et al, 2005;Larson et al, 2005) provides a parallel implementation of interpolation and data exchange. Besides generic couplers like OASIS, domain-specific couplers such as the Oceanographic Multi-purpose Software Environment (OMUSE; Pelupessy et al, 2017) that aims to provide a homogeneous environment for ocean modeling to make verification of simulation models with different codes and numerical methods and the Community Surface Dynamics Modeling System (CSDMS; Overeem et al, 2013) to develop integrated software modules for modeling of Earth surface processes are introduced.…”

Section: Introductionmentioning

confidence: 99%

Toward modular in situ visualization in Earth system models: the regional modeling system RegESM 1.1

Turunçoğlu

2019

Geosci. Model Dev.

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Abstract. The data volume produced by regional and global multicomponent Earth system models is rapidly increasing because of the improved spatial and temporal resolution of the model components and the sophistication of the numerical models regarding represented physical processes and their complex non-linear interactions. In particular, very small time steps need to be defined in non-hydrostatic high-resolution modeling applications to represent the evolution of the fast-moving processes such as turbulence, extratropical cyclones, convective lines, jet streams, internal waves, vertical turbulent mixing and surface gravity waves. Consequently, the employed small time steps cause extra computation and disk input–output overhead in the modeling system even if today's most powerful high-performance computing and data storage systems are considered. Analysis of the high volume of data from multiple Earth system model components at different temporal and spatial resolutions also poses a challenging problem to efficiently perform integrated data analysis of the massive amounts of data when relying on the traditional postprocessing methods today. This study mainly aims to explore the feasibility and added value of integrating existing in situ visualization and data analysis methods within the model coupling framework. The objective is to increase interoperability between Earth system multicomponent code and data-processing systems by providing an easy-to-use, efficient, generic and standardized modeling environment. The new data analysis approach enables simultaneous analysis of the vast amount of data produced by multicomponent regional Earth system models during the runtime. The presented methodology also aims to create an integrated modeling environment for analyzing fast-moving processes and their evolution both in time and space to support a better understanding of the underplaying physical mechanisms. The state-of-the-art approach can also be employed to solve common problems in the model development cycle, e.g., designing a new subgrid-scale parameterization that requires inspecting the integrated model behavior at a higher temporal and spatial scale simultaneously and supporting visual debugging of the multicomponent modeling systems, which usually are not facilitated by existing model coupling libraries and modeling systems.

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The Oceanographic Multipurpose Software Environment (OMUSE v1.0)

Cited by 15 publications

References 47 publications

Non-intrusive hierarchical coupling strategies for multi-scale simulations in gravitational dynamics

Non-intrusive hierarchical coupling strategies for multi-scale simulations in gravitational dynamics

Multi-scale high-performance computing in astrophysics: simulating clusters with stars, binaries and planets

Toward modular in situ visualization in Earth system models: the regional modeling system RegESM 1.1

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