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At least 775 records · Page 43

Modelling low Mach number stellar hydrodynamics with MAESTROeX

Modelling long-time convective flows in the interiors of stars is extremely challenging using conventional compressible hydrodynamics codes due to the acoustic timestep limitation. Many of these flows are in the low Mach number regime, which allows us to exploit the relationship between acoustic and advective time scales to develop a more computationally efficient approach. MAESTROeX is an open source low Mach number stellar hydrodynamics code that allows much larger timesteps to be taken, therefore enabling systems to be modelled for much longer periods of time. This is particularly important for the problem of convection in the cores of rotating massive stars prior to core collapse. To fully capture the dynamics, it is necessary to model these systems in three dimensions at high resolution over many rotational periods. We present an overview of MAESTROeX's current capabilities, describe ongoing work to incorporate the effects of rotation and discuss how we are optimising the code to run on GPUs.

Harpole, A.↗

Radiological Recovery Logistics Tool - 20161

Argonne is building and testing a tool, the Radiological Recovery Logistics Tool (RRLT), that can be used during the response and recovery from a radiological or nuclear incident to effectively allocate appropriate commercial and public works equipment to mitigate, remove, and contain radiological contamination. The requirements for this tool - as well as development of the resulting software - is overseen by a steering committee of stakeholders from DHS's National Urban Security Technology Laboratory (NUSTL), the Federal Emergency Management Agency (FEMA), and the Environmental Protection Agency (EPA). One essential requirement is for RRLT to support the efficient and appropriate allocation of resources for a radiological response. Subsequent discussions between ANL and stakeholders have solidified the nature of this support to include identification of the types of resources to be allocated. The study reported in this paper has both factored fundamental concepts and connections out of this identification process and created a Knowledge Base detailing support goals, response scenarios, and efficacy information on dozens of equipment types. In short, RRLT will dynamically apply these findings to situational conditions surrounding contamination incidents. RRLT's Domain, the model of elements, ideas and relationships with which the tool will work, draws concepts from technical reports and stakeholder vocabularies to connect response goals and scenarios to types of equipment that offer utility towards those goals in those scenarios. RRLT's Knowledge Base will contain details on dozens of equipment types and facilitate the operator's discovery and consumption of these details most pertinent to a dynamically selected subset of goals. The core of its Domain Model is based on a report authored by this team. This report [1] contains a comprehensive list of proposed equipment to accomplish various missions or scenarios that might arise after a large-scale radiological contamination incident in an urban environment or critical infrastructure. The report divides potential response and recovery efforts into five support goals: Survey and monitoring of the contaminated area; Mitigation of received dose to first responders: Decontamination (gross and final) of buildings, vehicles, roadways, parks, and other surfaces: Waste management of solid waste generated during recovery operations: and Containment of wastewater and other waste generated during the response and recovery phases. RRLT's development is driven by use cases. A use case is an intention with which a user approaches the software. Use cases are grouped into delivery increments to schedule development, testing, and presentation to stakeholders. This model partitions the system into seven increments: User Arrival and Authentication, Search and Navigation, Equipment Recommendation, Plan Management, Content Management, and Expanded Access. Once a user 15 authenticated, RRLT will present the user with a dashboard that allows them to explore or search RRLT's content. The dashboard will also include a 'Plan' panel for collecting decisions and relevant observations about an incident at hand to facilitate development of an equipment list. RRLT will offer three general modes of access to items in the knowledge base: - Keyword search for direct discovery of items, - Navigation along predetermined paths from recovery goal towards equipment types, and - Interactive guidance towards equipment types by an autonomous software agent: the Equipment Recommendation Wizard. This presentation will detail progress in the development of the RRLT and also discuss opportunities for those interested in providing feedback on its content and functionality. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Effects of pore size on water dynamics in mesoporous silica

Water confined in mesoporous silica plays a central role in its many uses ranging from gas sorption to nanoconfined chemical reactions. Here in this paper, the influence of pore diameter (2.5–5.4 nm) on water hydrogen bond (H-bond) dynamics in MCM41 and SBA15 mesoporous silicas is investigated using femtosecond infrared vibrational spectroscopy and molecular dynamics simulations on selenocyanate (SeCN-) anions dissolved in the pores. As shown recently, SeCN- spectral diffusion is a reliable probe of surrounding water H-bond structural motions. Additionally, the long CN stretch vibrational lifetime facilitates measurement of the full range of confined dynamics, which are much slower than in bulk water. The simulations shed light on quantitative details that are inaccessible from the spatially averaged observables. The dependence of SeCN- orientational relaxation and that of spectral diffusion on the distance from the silica interface are quantitatively described with an exponential decay and a smoothed step-function, respectively. The distance-dependence of both quantities is found to be independent of the diameter of the pores, and the spatial distribution of SeCN- is markedly non-uniform, reaching a maximum between the interface and the pore center. The results indicate that the commonly invoked two-state, or core–shell, model is a more appropriate description of spectral diffusion. Using these insights, we model the full time-dependence of the measured dynamics for all pore sizes and extract the “core” and “shell” dynamical correlation functions and SeCN- spatial probability distributions. The results are critically compared to those for water confined in reverse micelles.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Influence of solutes on the core structures of $\langle$ α $\rangle$-type screw dislocations in $α$-Ti

The $\langle$ α $\rangle$-type screw dislocations are known to be significant mediators of plasticity in hexagonal-close-packed (HCP) metals. These dislocations have polymorphic core structures, and subtle changes in the relative energies of these core structures are known to have a large impact on the dynamics of the dislocations. Here, this work identifies a previously neglected long-range elastic interstitial-solute/dislocation interaction that influences the core structures. Essentially, interstitial solutes induce a change in the dislocation core structure to minimize the energy of interaction between the solutes and the dislocation. Molecular dynamics simulations, continuum linear elasticity, and statistical analysis show that this long-range interaction can locally alter the dislocation cores so that many different polymorphs appear along a single dislocation not only because of direct contact between interstitials and the dislocation core but also because of this long-range elastic interaction.

36 MATERIALS SCIENCE↗

Incremental k-core decomposition: Algorithms and evaluation

A k-core of a graph is a maximal connected subgraph in which every vertex is connected to at least k vertices in the subgraph. k-core decomposition is often used in large-scale network analysis, such as community detection, protein function prediction, visualization, and solving NP-hard problems on real networks efficiently, like maximal clique finding. In many real-world applications, networks change over time. As a result, it is essential to develop efficient incremental algorithms for dynamic graph data. In this paper, we propose a suite of incremental k-core decomposition algorithms for dynamic graph data. These algorithms locate a small subgraph that is guaranteed to contain the list of vertices whose maximum k-core values have changed and efficiently process this subgraph to update the k-core decomposition. We present incremental algorithms for both insertion and deletion operations, and propose auxiliary vertex state maintenance techniques that can further accelerate these operations. Our results show a significant reduction in runtime compared to non-incremental alternatives. We illustrate the efficiency of our algorithms on different types of real and synthetic graphs, at varying scales. Furthermore, for a graph of 16 million vertices, we observe relative throughputs reaching a million times, relative to the non-incremental algorithms.

97 MATHEMATICS AND COMPUTING↗

Time-resolved electron spectroscopy for chemical analysis of photodissociation: Photoelectron spectra of Fe(CO) 5 , Fe(CO) 4 , and Fe(CO) 3

The prototypical photoinduced dissociation of Fe(CO) 5 in the gas phase is used to test time-resolved x-ray photoelectron spectroscopy for studying photochemical reactions. Upon one-photon excitation at 266 nm, Fe(CO) 5 successively dissociates to Fe(CO) 4 and Fe(CO) 3 along a pathway where both fragments retain the singlet multiplicity of Fe(CO) 5 . The x-ray free-electron laser FLASH is used to probe the reaction intermediates Fe(CO) 4 and Fe(CO) 3 with time-resolved valence and core-level photoelectron spectroscopy, and experimental results are interpreted with ab initio quantum chemical calculations. Changes in the valence photoelectron spectra are shown to reflect changes in the valence-orbital interactions upon Fe–CO dissociation, thereby validating fundamental theoretical concepts in Fe–CO bonding. Chemical shifts of CO 3σ inner-valence and Fe 3p core-level binding energies are shown to correlate with changes in the coordination number of the Fe center. We interpret this with coordination-dependent charge localization and core-hole screening based on calculated changes in electron densities upon core-hole creation in the final ionic states. This extends the established capabilities of steady-state electron spectroscopy for chemical analysis to time-resolved investigations. Lastly, it could also serve as a benchmark for how charge and spin density changes in molecular dissociation and excited-state dynamics are expressed in valence and core-level photoelectron spectroscopy.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Lifecycle of laser-produced air sparks

We investigated the lifecycle of laser-generated air sparks or plasmas using multiple plasma diagnostic tools. The sparks were generated by focusing the fundamental radiation from an Nd:YAG laser in air, and studies included early and late time spark dynamics, decoupling of the shock wave from the plasma core, emission from the spark kernel, cold gas excitation by UV radiation, shock waves produced by the air spark, and the spark's final decay and turbulence formation. The shadowgraphic and self-emission images showed similar spark morphology at earlier and late times of its lifecycle; however, significant differences are seen in the midlife images. Spectroscopic studies in the visible region showed intense blackbody-type radiation at early times followed by clearly resolved ionic, atomic, and molecular emission. The detected spectrum at late times clearly contained emission from both CN and N{sub 2}{sup +}. Additional spectral features have been identified at late times due to emission from O and N atoms, indicating some degree of molecular dissociation and excitation. Detailed spatially and temporally resolved emission analysis provides insight about various physical mechanisms leading to molecular and atomic emission by air sparks, including spark plasma excitation, heating of cold air by UV radiation emitted by the spark, and shock-heating.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Was core formation violent enough to homogenize the early mantle?

The dynamics of iron, its thermal state and its phase in the accreting Earth probably played a major role in the Earth's early thermal evolution. Plausible impact thermal histories make it possible that pure iron was molten in the accreting Earth after it was about 10% grown. Hence, iron eutectic alloys (FeS, FeO) certainly were. Additionally, the initial temperature of the core is an important constraint on the secular cooling of the early Earth and on the strength of the early geodynamo. Whether iron is solid or molten would influence geochemical equilibria in the upper and lower mantle; the mode of core formation, by spherical or near-spherical blobs, stalk-like instabilities, or something more catastrophic would influence the partitioning of siderophiles between silicate and iron phases. Early descent of iron (during accretion) favors partitioning according to low-pressure phase equilibria, whereas late descent favors higher pressure. The later core formation occurs, the greater the heat pulse, due to the strong dependence of gravitational potential energy on planetary radius. The heat may homogenize the mantle if core formation is global; otherwise, heterogeneity of iron differentiation may leave some of the pre-archean mantle unaffected. The larger the chunks of proto-core (and hence smaller surface/volume ratios) the greater the heterogeneity.

Cooperman, S. A.↗

Triggering collapse of the presolar dense cloud core and injecting short-lived radioisotopes with a shock wave. IV. effects of rotational axis orientation

Both astronomical observations of the interaction of Type II supernova remnants (SNRs) with dense interstellar clouds as well as cosmochemical studies of the abundances of daughter products of short-lived radioisotopes (SLRIs) formed by supernova nucleosynthesis support the hypothesis that the Solar System's SLRIs may have been derived from a supernova. This paper continues a series devoted to examining whether or not such a shock wave could have triggered the dynamical collapse of a dense, presolar cloud core and simultaneously injected sufficient abundances of SLRIs to explain the cosmochemical evidence. Here, we examine the effects of shock waves striking clouds whose spin axes are oriented perpendicular, rather than parallel, to the direction of propagation of the shock front. The models start with 2.2 M{sub ⊙} cloud cores and shock speeds of 20 or 40 km s{sup −1}. Central protostars and protoplanetary disks form in all models, although with their disk spin axes aligned somewhat randomly. The disks derive most of their angular momentum not from the initial cloud rotation, but from the Rayleigh-Taylor fingers that also inject shock wave SLRIs. Injection efficiencies, f{sub i}, the fraction of the incident shock wave material injected into the collapsing cloud core, are ∼0.04–0.1 in these models, similar to when the rotation axis is parallel to the shock propagation direction. Evidently, altering the rotation axis orientation has only a minor effect on the outcome, strengthening the case for this scenario as an explanation for the Solar System's SLRIs.

79 ASTRONOMY AND ASTROPHYSICS↗

Core microbiomes for sustainable agroecosystems

In an era of ecosystem degradation and climate change, maximizing microbial functions in agroecosystems has become a prerequisite for the future of global agriculture. Furthermore, managing species-rich communities of plant-associated microbiomes remains a major challenge. Here, we propose interdisciplinary research strategies to optimize microbiome functions in agroecosystems. Informatics now allows us to identify members and characteristics of ‘core microbiomes’, which may be deployed to organize otherwise uncontrollable dynamics of resident microbiomes. Integration of microfluidics, robotics and machine learning provides novel ways to capitalize on core microbiomes for increasing resource-efficiency and stress-resistance of agroecosystems.

60 APPLIED LIFE SCIENCES↗

All Hazards Analysis Core

The All Hazards Knowledge Framework (AHA) is a dynamic analytical framework that enables critical infrastructure knowledge discovery and decision support across the five mission areas – prevention, protection, mitigation, response and recovery. AHA provides the ability to store and model infrastructure systems as a linked multigraphs providing an intuitive and natural representation. This capability provides the foundation to rapidly evaluate and understand the potential consequences of manmade and natural disaster on these systems.

McGillivary, KentE.↗

Dynamics of heat-pipe reactors

A split-core heat pipe reactor, fueled with either U(233)C or U(235)C in a tungsten cermet and cooled by 7-Li-W heat pipes, was examined for the effects of the heat pipes on reactor while trying to safely absorb large reactivity inputs through inherent shutdown mechanisms. Limits on ramp reactivity inputs due to fuel melting temperature and heat pipe wall heat flux were mapped for the reactor in both startup and at-power operating modes.

Niederauer, G. F.↗

Dynamics of heat-pipe reactors.

A split-core heat-pipe reactor fueled with either 233-UC or 235-UC in a tungsten cermet and cooled by 7-Li-W heat pipes is examined for the effects of the heat pipes on this reactor in trying to safely absorb large reactivity inputs through inherent shutdown mechanisms. Limits on ramp reactivity inputs due to fuel-melting temperature and heat-pipe wall heat flux are mapped for the reactor in both startup and at-power operating modes.

Niederauer, G. F.↗

Temporal and angular variations of 3D core-collapse supernova emissions and their physical correlations

Abstract We provide the time series and angular distributions of the neutrino and gravitational wave emissions of 11 state-of-the-art 3D non-rotating core-collapse supernova models and explore correlations between these signatures and the real-time dynamics of the shock and the proto-neutron star (PNS) core. The neutrino emissions are roughly isotropic on average, with instantaneous excursions about the mean inferred luminosity of as much as ±20 per cent. The deviation from isotropy is least for the ‘νμ’-type neutrinos and the lowest mass progenitors. Instantaneous temporal luminosity variations along a given direction for exploding models average ∼2–4 per cent, but can be as high as ∼10 per cent. For non-exploding models, they can achieve ∼25 per cent. The temporal variations in the neutrino emissions correlate with the temporal and angular variations in the mass accretion rate. We witness the lepton-number emission self-sustained asymmetry (LESA) phenomenon in all our models and find that the vector direction of the LESA dipole and that of the inner Ye distribution are highly correlated. For our entire set of 3D models, we find strong connections between the cumulative neutrino energy losses, the radius of the proto-neutron star, and the f-mode frequency of the gravitational wave emissions. When physically normalized, the progenitor-to-progenitor variation in any of these quantities is no more than ∼10 per cent. Moreover, the reduced f-mode frequency is independent of time after bounce to better than ∼10 per cent. Therefore, simultaneous measurement of gravitational waves and neutrinos from a given supernova event can be used synergistically to extract real physical quantities of the supernova core.

79 ASTRONOMY AND ASTROPHYSICS↗

Crossover from disordered to core-shell structures of nano-oxide Y 2 O 3 dispersed particles in Fe

Here, molecular dynamic simulations of Y 2 O 3 in bcc Fe and transmission electron microscopy (TEM) observations were used to understand the structure of Y 2 O 3 nano-clusters in an oxide dispersion strengthened steel matrix. The study showed that Y 2 O 3 nano-clusters below 2 nm were completely disordered. Y 2 O 3 nano-clusters above 2 nm, however, form a core-shell structure, with a shell thickness of 0.5–0.7 nm that is independent of nano-cluster size. Y 2 O 3 nano-clusters were surrounded by off-lattice Fe atoms, further increasing the stability of these nano-clusters. TEM was used to corroborate our simulation results and showed a crossover from a disordered nano-cluster to a core-shell structure.

36 MATERIALS SCIENCE↗

Multilayered Ordered Protein Arrays Self-Assembled from a Mixed Population of Virus-like Particles

Biology shows many examples of spatially controlled assembly of cells and biomacromolecules into hierarchically organized structures, to which many of the complex biological functions are attributed. While such biological structures have inspired the design of synthetic materials, it is still a great challenge to control the spatial arrangement of individual building blocks when assembling multiple types of components into bulk materials. Here, in this study, we report self-assembly of multilayered, ordered protein arrays from mixed populations of virus-like particles (VLPs). We systematically tuned the magnitude of the surface charge of the VLPs via mutagenesis to prepare four different types of VLPs for mixing. A mixture of up to four types of VLPs selectively assembled into higher-order structures in the presence of oppositely charged dendrimers during a gradual lowering of the ionic strength of the solution. The assembly resulted in the formation of three-dimensional ordered VLP arrays with up to four distinct layers including a central core, with each layer comprising a single type of VLP. A coarse-grained computational model was developed and simulated using molecular dynamics to probe the formation of the multilayered, core-shell structure. Our findings establish a simple and versatile bottom-up strategy to synthesize multilayered, ordered materials by controlling the spatial arrangement of multiple types of nanoscale building blocks in a one-pot fabrication.

59 BASIC BIOLOGICAL SCIENCES↗

Electronic Structure and Dynamics of Higher-Lying Excited States in Light Harvesting Complex 1 from Rhodobacter sphaeroides

Light harvesting in photosynthetic organisms involves efficient transfer of energy from peripheral antenna complexes to core antenna complexes, and ultimately to the reaction center where charge separation drives downstream photosynthetic processes. Antenna complexes contain many strongly coupled chromophores, which complicates analysis of their electronic structure. Two-dimensional electronic spectroscopy (2DES) provides information on energetic coupling and ultrafast energy transfer dynamics, making the technique well suited for the study of photosynthetic antennae. Here in this paper, we present 2DES results on excited state properties and dynamics of a core antenna complex, light harvesting complex 1 (LH1), embedded in the photosynthetic membrane of Rhodobacter sphaeroides . The experiment reveals weakly allowed higher-lying excited states in LH1 at 770 nm, which transfer energy to the strongly allowed states at 875 nm with a lifetime of 40 fs. The presence of higher-lying excited states is in agreement with effective Hamiltonians constructed using parameters from crystal structures and atomic force microscopy (AFM) studies. The energy transfer dynamics between the higher- and lower-lying excited states agree with Redfield theory calculations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗