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At least 451 records · Page 25

Condensed Phase Water Molecular Multipole Moments from Deep Neural Network Models Trained on Ab Initio Simulation Data

Ionic solvation phenomena in liquids involve intense interactions in the inner solvation shell. For interactions beyond the first shell, the ion–solvent interaction energies result from the sum of many smaller-magnitude contributions that can still include polarization effects. Deep neural network (DNN) methods have recently found wide application in developing efficient molecular models that maintain near-quantum accuracy. In this work, we extend the DeePMD-kit code to produce accurate molecular multipole moments in the bulk and near interfaces. The new method is validated by comparing the DNN moments with those generated by ab initio simulations. The moments are used to compute the electrostatic potential at the center of a molecular-sized hydrophobic cavity in water. The results show that the fields produced by the DNN models are in quantitative agreement with the AIMD-derived values. These efficient methods will open the door to more accurate solvation models for large solutes such as proteins.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

THE BUILDUP OF A SCALE-FREE PHOTOSPHERIC MAGNETIC NETWORK

We use a global Monte Carlo simulation of the formation of the solar photospheric magnetic network to investigate the origin of the scale invariance characterizing magnetic flux concentrations visible on high-resolution magnetograms. The simulations include spatially and temporally homogeneous injection of small-scale magnetic elements over the whole photosphere, as well as localized episodic injection associated with the emergence and decay of active regions. Network elements form in response to cumulative pairwise aggregation or cancellation of magnetic elements, undergoing a random walk on the sphere and advected on large spatial scales by differential rotation and a poleward meridional flow. The resulting size distribution of simulated network elements is in very good agreement with observational inferences. We find that the fractal index and size distribution of network elements are determined primarily by these post-emergence surface mechanisms, and carry little or no memory of the scales at which magnetic flux is injected in the simulation. Implications for models of dynamo action in the Sun are briefly discussed.

79 ASTRONOMY AND ASTROPHYSICS↗

Developing Data-Driven Synthetic Infrastructure Models for Resilience Analysis

Research on infrastructure resilience has produced promising methods to simulate and optimize complex networks to improve performance. However, restrictions on sharing infrastructure models and the steep cost of developing and maintaining infrastructure models presents a roadblock to adoption. To overcome this limitation, this research focuses on methods to create data-driven infrastructure models that will help improve infrastructure resilience and security. The analysis couples incomplete utility data, geospatial data, machine learning, and synthetic network generation methods to rapidly develop and update infrastructure models. The methods are validated using realistic utility models and site-specific data, with a focus on Puerto Rico due to its unique infrastructure challenges and available data. This research highlights promising opportunities for the use of synthetic network generation and machine learning to create infrastructure models when very little data is available. Results demonstrate that hybrid methods, which combine sparse utility data with synthetic models, can enhance model accuracy, and machine learning can predict model attributes using training data from other models. However, the complexity of infrastructure systems means that even minor changes in network connectivity can significantly impact simulation results. Resilience analysis using synthetic infrastructure models shows that while some system behaviors are preserved, the magnitude of disruptions may not be accurately represented, indicating the need for more research and validation before using synthetic models for critical infrastructure investment decisions. The framework outlined in this report represents a significant advance to infrastructure model development and could be applied to additional domains and sites. Future research will continue to streamline and validate methods to help reduce roadblocks to resilience analysis.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Cyber-Power Co-Simulation for End-to-End Synchrophasor Network Analysis and Applications

The resiliency, reliability and security of the next generation cyber-power smart grid depend upon efficiently leveraging advanced communication and computing technologies. Also, developing real-time data-driven applications is critical to enable wide-area monitoring and control of the cyber-power grid given high-resolution data from Phasor Measurement Units (PMUs). North American Synchrophasor Initiative Network (NASPlnet) provides guidance for PMU data exchanges. With the advancement in networking and grid operation, it is necessary to evaluate the performance of different data flow architectures suggested by NASPInet and analyze the impact on applications. Therefore, we need a cyber-power co-simulation framework that supports very large-scale co-simulation capable of running in parallel, high-performance computing platforms and capturing real-life network behavior. This work presents an end-to-end automated and user-driven cyber-power co-simulation using NS3 to model communication networks, GridPACK to model the power grid, and HELICS as a co-simulation engine. Comparative analysis of latency in synchrophasor networks and a performance evaluation of a power system stabilizer application utilizing PMU data in an IEEE 39 bus test system is presented using this cosimulation testbed.

Mustafa, Hussain M.↗

Do not forget the electrons: Extending moderately-sized nuclear networks for multidimensional hydrodynamic codes

Context.Nuclear networks are widely used coupled with hydrodynamical simulations of explosive scenarios to account for the change of nuclear species and energy generation rate due to nuclear reactions. In this way, there is a feedback mechanism between the hydrodynamical state and the nuclear processes. Unfortunately, the timescale of nuclear reactions is orders of magnitude smaller than the dynamical timescale that drives hydrodynamical simulations. Therefore, these nuclear networks are usually very small, reduced in most cases to a dozen elements, especially when simulations are carried out in more than one dimension. Aims.We present here an extended nuclear network, with 90 species, designed for being coupled with hydrodynamic simulations, which includes neutrons, protons, electrons, positrons, and the corresponding neutrino and anti-neutrino emission. This network is also coupled with temperature, making it extremely robust and, together with its size, unique of its kind. The inclusion of electron captures on free protons makes the network very appropriate for multidimensional studies of Type Ia supernova explosions, especially when the exploding object is a massive white dwarf. Methods.We perform several tests that are relevant to simulate explosive scenarios, such as Type Ia supernovae and core-collapse supernovae. We compare the results of the 90 nuclei network with a standardα-chain network with 14 elements to evaluate the differences in the energy generation rate. We also evaluate the relevance of including the electrons in the network in terms of generated yields and how it affects the pressure of a degenerate fluid such as that of white dwarfs. The results obtained with the 90-nuclei network have been verified with a much larger 2000-nuclei network built from REACLIB (WinNet), in terms of nuclear energy generation rate, pressure, and produced yields. Results.The results obtained with the proposed medium-sized network compare fairly well, to a few percent, with those computed withWinNetin scenarios reproducing the gross physical conditions of current Type Ia supernova explosion models. In those cases where the carbon and oxygen fuel ignites at high density, the high-temperature plateau typical of the nuclear statistical equilibrium regime is well defined and stable, allowing large integration time steps. We show that the inclusion of electron captures on free protons substantially improves the estimation of the electron fraction of the mixture. Therefore, the pressure is better determined than in networks where electron captures are excluded, which will ultimately lead to more reliable hydrodynamic models. Explosive combustion of helium at low density, occurring near the surface layer of a white dwarf, is also better described with the proposed network, which gives nuclear energy generation rates much closer toWinNetthan typical reduced alpha networks. Conclusions.A nuclear network withN= 90 species, including electrons, aimed at multidimensional calculations of supernova explosions is described and verified. The proposed network is suitable for the study of Type Ia supernova explosions because it provides better values of pressure and electron abundance than other existing networks with smaller or even a similar size but without including electron capture processes.

Astronomy & Astrophysics↗

Approximation of refrigerant thermophysical properties using neural networks to speed up transient thermofluid simulations

Accurate and efficient evaluations of refrigerant thermophysical properties and their partial derivatives are essential for transient simulations of thermofluid systems, where several computations need to be executed at each integration time step. Since the utilization of an Equation of State for retrieving properties based on a pair of independent inputs typically involves numerical iterations in solution procedures, when the input variables differ from the refrigerant state variables employed in dynamic models, a variety of approaches including lookup table interpolation and curve fitting have been developed to explicitly approximate these properties based on the state variables, and consequently eliminate internal iterations. This paper presents an alternative method that exploits derivative-informed neural networks to model refrigerant properties explicitly from inputs of pressure and enthalpy, while ensuring consistent partial derivatives generated by differentiating the neural networks. Computational speed and accuracy of the proposed approach are demonstrated via transient simulations of a discretized heat exchanger model in Modelica, and comparisons against other property evaluation routines. Simulation results indicate that the proposed approach can realize a significant speedup with negligible discrepancies in predicted transients. The method is implemented in an open-source Modelica library.

Ma, Jiacheng↗

Towards a unified description of the hydrogen bond network of liquid water: A dynamics based approach

The definition of a hydrogen bond (H-bond) is intimately related to the topological and dynamic properties of the hydrogen bond network within liquid water. The development of a universal H-bond definition for water is an active area of research as it would remove many ambiguities in the network properties that derive from the fixed definition employed to assign whether a water dimer is hydrogen bonded. This work investigates the impact that an electronic-structure based definition, an energetic, and a geometric definition of the H-bond has upon both topological and dynamic network behavior of simulated water. In each definition, the use of a cutoff (either geometric or energetic) to assign the presence of a H-bond leads to the formation of transiently bonded or broken dimers, which have been quantified within the simulation data. The relative concentration of transient species, and their duration, results in two of the three definitions sharing similarities in either topological or dynamic features (H-bond distribution, H-bond lifetime, etc.), however no two definitions exhibit similar behavior for both classes of network properties. In fact, two networks with similar local network topology (as indicated by similar average H-bonds) can have dramatically different global network topology (as indicated by the defect state distributions) and altered H-bond lifetimes. A dynamics based correction scheme is then used to remove artificially transient H-bonds and to repair artificially broken bonds within the network such that the corrected network exhibits the same structural and dynamic properties for two H-bond definitions (the properties of the third definition being significantly improved). The algorithm described represents a significant step forward in the development of a unified hydrogen bond network whose properties are independent of the original hydrogen bond definition that is employed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

ON FIBRILS AND FIELD LINES: THE NATURE OF Hα FIBRILS IN THE SOLAR CHROMOSPHERE

Observations of the solar chromosphere in the line core of the Hα line show dark elongated structures called fibrils that show swaying motion. We performed a three-dimensional radiation-MHD simulation of a network region and computed synthetic Hα images from this simulation to investigate the relation between fibrils and the magnetic field lines in the chromosphere. The periods, amplitudes, and phase speeds of the simulated fibrils are consistent with observations. We find that some fibrils trace out the same field line along the fibril’s length, while other fibrils sample different field lines at different locations along their length. Fibrils sample the same field lines on a timescale of ∼200 s. This is shorter than their own lifetime. Fibril-threading field lines carry slow-mode waves, as well as transverse waves propagating with the Alfvén speed. Transverse waves propagating in opposite directions cause an interference pattern with complex apparent phase speeds. The relationship between fibrils and field lines is governed by constant migration and swaying of the field lines, their mass loading and draining, and their visibility in Hα. Field lines are visible where they lie close to the optical depth unity surface. The location of the latter is at a height at which the column mass reaches a certain fixed value. The visibility of the field line is thus determined by its own mass density and by the mass density of the material above it. Using the swaying motion of fibrils as a tracer of chromospheric transverse oscillations must be done with caution.

79 ASTRONOMY AND ASTROPHYSICS↗

Scaling neural simulations in STACS

Abstract As modern neuroscience tools acquire more details about the brain, the need to move towards biological-scale neural simulations continues to grow. However, effective simulations at scale remain a challenge. Beyond just the tooling required to enable parallel execution, there is also the unique structure of the synaptic interconnectivity, which is globally sparse but has relatively high connection density and non-local interactions per neuron. There are also various practicalities to consider in high performance computing applications, such as the need for serializing neural networks to support potentially long-running simulations that require checkpoint-restart. Although acceleration on neuromorphic hardware is also a possibility, development in this space can be difficult as hardware support tends to vary between platforms and software support for larger scale models also tends to be limited. In this paper, we focus our attention on Simulation Tool for Asynchronous Cortical Streams (STACS), a spiking neural network simulator that leverages the Charm++ parallel programming framework, with the goal of supporting biological-scale simulations as well as interoperability between platforms. Central to these goals is the implementation of scalable data structures suitable for efficiently distributing a network across parallel partitions. Here, we discuss a straightforward extension of a parallel data format with a history of use in graph partitioners, which also serves as a portable intermediate representation for different neuromorphic backends. We perform scaling studies on the Summit supercomputer, examining the capabilities of STACS in terms of network build and storage, partitioning, and execution. We highlight how a suitably partitioned, spatially dependent synaptic structure introduces a communication workload well-suited to the multicast communication supported by Charm++. We evaluate the strong and weak scaling behavior for networks on the order of millions of neurons and billions of synapses, and show that STACS achieves competitive levels of parallel efficiency.

59 BASIC BIOLOGICAL SCIENCES↗

Scaling kinetic Monte-Carlo simulations of grain growth with combined convolutional and graph neural networks

Graph neural networks (GNN) have emerged as a promising machine learning method for microstructure simulations such as grain growth. However, accurate modeling of realistic grain boundary networks requires large simulation cells, which GNN has difficulty scaling up to. To alleviate the computational costs and memory footprint of GNN, we suggest a hybrid architecture combining a convolutional neural network (CNN) based bijective autoencoder to compress the spatial dimensions, and a GNN that evolves the microstructure in the latent space of reduced spatial sizes. Our results demonstrate that the new design significantly reduces computational costs with using fewer message passing layer (from 12 down to 3) compared with GNN alone. The reduction in computational cost becomes more pronounced as the spatial size increases, indicating strong computational scalability. For the largest mesh evaluated (160 3 ), our method reduces memory usage and runtime in inference by 117× and 115×, respectively, compared with GNN-only baseline. More importantly, it shows higher accuracy and stronger spatiotemporal capability than the GNN-only baseline, especially in long-term testing. Such combination of scalability and accuracy is essential for simulating realistic material microstructures over extended time scales. The improvements can be attributed to the bijective autoencoder’s ability to compress information losslessly from spatial domain into a high dimensional feature space, thereby producing more expressive latent features for the GNN to learn from, while also contributing its own spatiotemporal modeling capability. Training data are generated from stochastic grain growth simulations, providing realistic variability for learning robust microstructure evolution. Comprehensive system validation confirms that the model is accurate, robust, and scalable.

36 MATERIALS SCIENCE↗

Exactness of OPF Relaxation on Three-phase Radial Networks with Delta Connections

Simulations have shown that while semi-definite relaxations of AC optimal power flow (AC-OPF) on three-phase radial networks with only wye connections tend to be exact, the presence of delta connections seem to render them inexact. This paper shows that such inexactness originates from the non-uniqueness of relaxation solutions and numerical errors amplified by the non-uniqueness. This finding motivates two algorithms to recover the exact solution of AC-OPF in unbalanced distribution networks featuring both wye and delta connections. In simulations using IEEE 13, 37 and 123-bus systems, the proposed algorithms provide exact optimal solutions up to numerical precision.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Catalyst: Fast and flexible modeling of reaction networks

We introduce Catalyst.jl, a flexible and feature-filled Julia library for modeling and high-performance simulation of chemical reaction networks (CRNs). Catalyst supports simulating stochastic chemical kinetics (jump process), chemical Langevin equation (stochastic differential equation), and reaction rate equation (ordinary differential equation) representations for CRNs. Through comprehensive benchmarks, we demonstrate that Catalyst simulation runtimes are often one to two orders of magnitude faster than other popular tools. More broadly, Catalyst acts as both a domain-specific language and an intermediate representation for symbolically encoding CRN models as Julia-native objects. This enables a pipeline of symbolically specifying, analyzing, and modifying CRNs; converting Catalyst models to symbolic representations of concrete mathematical models; and generating compiled code for numerical solvers. Leveraging ModelingToolkit.jl and Symbolics.jl, Catalyst models can be analyzed, simplified, and compiled into optimized representations for use in numerical solvers. Finally, we demonstrate Catalyst’s broad extensibility and composability by highlighting how it can compose with a variety of Julia libraries, and how existing open-source biological modeling projects have extended its intermediate representation.

59 BASIC BIOLOGICAL SCIENCES↗

A method to predict fatigue crack initiation in metals using dislocation dynamics

Abstract A theory is proposed to predict the initiation of fatigue cracks using cyclic dislocation dynamics (DD) simulations. The evolution of dislocation networks in a grain is simulated over several cycles. It is shown that the dislocation density and the energy stored in the dislocation networks increase with the number of cycles. The results of the DD simulations are used to construct an energy balance expression for crack initiation. A hypothetical crack is inserted into the grain, and the Gibbs energy consisting of the energy of the dislocation structure, the surface energy of the hypothetical crack, and the reduction in continuum energy is evaluated. Once the Gibbs energy attains a maximum, the dislocation structure becomes unstable, and it becomes energetically more favorable to form a real crack. The proposed method is applied to oxygen-free high conductivity copper, and the results are compared against experiments. Finally, it is shown how the method can be amended to account for environmental effects.

Electrochemistry↗

A Lattice Boltzmann Fictitious Domain Method for Modeling Red Blood Cell Deformation and Multiple-Cell Hydrodynamic Interactions in Flow

To model red blood cell (RBC) deformation in flow, the recently developed LBM-DLM/FD method ([Shi and Lim, 2007)29], derived from the lattice Boltzmann method and the distributed Lagrange multiplier/fictitious domain methodthe fictitious domain method, is extended to employ the mesoscopic network model for simulations of red blood cell deformation. The flow is simulated by the lattice Boltzmann method with an external force, while the network model is used for modeling red blood cell deformation and the fluid-RBC interaction is enforced by the Lagrange multiplier. To validate parameters of the RBC network model, sThe stretching numerical tests on both coarse and fine meshes are performed and compared with the corresponding experimental data to validate the parameters of the RBC network model. In addition, RBC deformation in pipe flow and in shear flow is simulated, revealing the capacity of the current method for modeling RBC deformation in various flows.

Shi, Xing↗

xGFabric: Coupling Sensor Networks and HPC Facilities with Private 5G Wireless Networks for Real-Time Digital Agriculture

Advanced scientific applications require coupling distributed sensor networks with centralized high-performance computing facilities. Citrus Under Protective Screening (CUPS) exemplifies this need in digital agriculture, where citrus research facilities are instrumented with numerous sensors monitoring environmental conditions and detecting protective screening damage. CUPS demands access to computational fluid dynamics codes for modeling environmental conditions and guiding real-time interventions like water application or robotic repairs. These computing domains have contrasting properties: sensor networks provide low-performance, limited-capacity, unreliable data access, while high-performance facilities offer enormous computing power through high-latency batch processing. Private 5G networks present novel capabilities addressing this challenge by providing low latency, high throughput, and reliability necessary for near-real-time coupling of edge sensor networks with HPC simulations. This work presents xGFabric, an end-to-end system coupling sensor networks with HPC facilities through Private 5G networks. The prototype connects remote sensors via 5G network slicing to HPC systems, enabling real-time digital agriculture simulation.

Digital Agriculture↗

Opposing Hysteresis Patterns in Flow and Outflow Macroscopic Fundamental Diagrams and Their Implications

Two key aggregated traffic models are the relationship between average network flow and density (known as the network or flow macroscopic fundamental diagram [flow-MFD]) and the relationship between trip completion and density (known as network exit function or the outflow-MFD [o-FMD]). The flow- and o-MFDs have been shown to be related by average network length and average trip distance under steady-state conditions. However, recent studies have demonstrated that these two relationships might have different patterns when traffic conditions are allowed to vary: the flow-MFD exhibits a clockwise hysteresis loop, while the o-MFD exhibits a counter-clockwise loop. One recent study attributes this behavior to the presence of bottlenecks within the network. The present paper demonstrates that this phenomenon may arise even without bottlenecks present and offers an alternative, but more general, explanation for these findings: a vehicle’s entire trip contributes to a network’s average flow, while only its end contributes to the trip completion rate. This lag can also be exaggerated by trips with different lengths, and it can lead to other patterns in the o-MFD such as figure-eight patterns. A simple arterial example is used to demonstrate this explanation and reveal the expected patterns, and they are also identified in real networks using empirical data. Then, simulations of a congestible ring network are used to unveil features that might increase or diminish the differences between the flow- and o-MFDs. Finally, more realistic simulations are used to confirm that these behaviors arise in real networks.

42 ENGINEERING↗

Tuning Phase Lock Loop Controller of Grid Following Inverters by Reinforcement Learning to Support Networked Microgrid Operations

The dynamic operation of networked microgrids leads to varying topological configurations and generator commitments and dispatches. These variations correspond to systems with different electrical characteristics. The fixed control gains of high-speed power electronic devices may result in undesirable system performance when the electrical characteristics change significantly. As such, it is necessary to tune the control gains of power electronics devices to adapt to the changing system characteristics. This paper uses observer-based reinforcement learning to automatically tune the proportional-integral (PI) gains of phase lock loop (PLL) controller of grid-following (GFL) inverters to adapt to the changing system strengths, that would be seen in networked microgrid operations. Simulation results using an operational electric distribution system, modeled as networked microgrids, are presented to demonstrate the need and effectiveness of the proposed adaptive controls.

networked microgrids, reinforcement learning, grid↗