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This repository contains the source code for the coarse-grained, systemic, and dynamic model of Saccharomyces cerevisiae. Related publishments: Emergence of Orchestrated and Dynamic Metabolism of Saccharomyces cerevisiae. Coarse-Grained Modeling Elucidates Differential Metabolism of Saccharomyces cerevisiae under Varied Nutrient Limitations.
This paper presents a generic and multifunctional electromagnetic transient (EMT) dynamic model of grid-following (GFL) inverter-based resources (IBRs) using the PSCAD software platform. The features of the model include flexibility in selecting various types and combinations of DC sources covering photovoltaic modules, battery modules, and ideal DC-source modules as well as flexibility in selecting either switching or averaged models of the inverter. This model also covers exhaustive lists of controller algorithm, including open-loop/closed-loop PQ dispatch control, DC voltage and AC terminal voltage control, and conventional current control designed in the dq-domain, the ..alpha....beta.. -domain, and the positive-/negative-sequence domain. Moreover, this model is equipped with flexibility in selecting various types of current-limiting schemes, including saturation-based and latching-based current limiters, and anti-windup protection. Also, the EMT model is agnostic to the MVA rating and is suitable for interfacing transmission systems by complying with IEEE Std. 2800. The generality in the power circuits and the multifunctional options in the operation and control of the developed EMT model make it suitable for both academia and industry to study various power system aspects, including, but not limited to, the fault behavior of GFL IBRs, the impacts on the protection system, and the transient stability of a system interfaced with large numbers of GFL IBRs.
In the long-term operation of nuclear power plants, the aging of systems, structures, and components can lead to maintenance issues that must be dealt with to maintain cost-effective plant operations. One common issue affecting the currently operated boiling water reactors is the onset of unexpected level oscillations in feedwater heaters. This phenomenon can cause excessive cycling of drain valves and lead to premature failures. In this work, we develop a dynamic model of a set of feedwater heaters to determine the root cause of oscillations observed in an operating plant. Simulation results of various transient scenarios were used to investigate the effects of the controller parameters, boundary conditions, and possible valve and instrument issues. The analysis led to the conclusion that the most likely causes of the observed self-sustained oscillations in the system are the nonlinear behaviors of the drain valve and the level transmitter induced by degraded equipment condition. In conclusion, a partial plug of the pressure line used for level sensing in the system can account for a significant deadtime in the level transmitter, a nonlinear effect shown to induce self-sustained oscillatory behaviors.
A new frequency-domain dynamics model has been developed that uses open-source components to efficiently represent a complete floating wind turbine system. The model, called RAFT (Response Amplitudes of Floating Turbines), incorporates quasi-static mooring reactions, strip-theory and potential-flow hydrodynamics, blade-element-momentum aerodynamics, and linear turbine control. The formulation is compatible with a wide variety of support structure configurations and no manual or time-domain preprocessing steps are required, making RAFT very practical in design and optimization workflows. The model is applied to three reference floating wind turbine designs and its predictions are compared with results from time-domain OpenFAST simulations. There is good agreement in mean offsets as well the statistics and spectra of the dynamic response, verifying RAFT’s general suitability for floating wind analysis. Follow-on work will include verification of potential-flow and turbine-control features and application to optimization problems.
This study develops a connected eco-driving controller for battery electric vehicles (BEVs), the BEV Eco-Cooperative Adaptive Cruise Control at Intersections (Eco-CACC-I). The developed controller can assist BEVs while traversing signalized intersections with minimal energy consumption. The calculation of the optimal vehicle trajectory is formulated as an optimization problem under the constraints of (1) vehicle acceleration/deceleration behavior, defined by a vehicle dynamics model; (2) vehicle energy consumption behavior, defined by a BEV energy consumption model; and (3) the relationship between vehicle speed, location, and signal timing, defined by vehicle characteristics and signal phase and timing (SPaT) data shared under a connected vehicle environment. The optimal speed trajectory is computed in real-time by the proposed BEV eco-CACC-I controller, so that a BEV can follow the optimal speed while negotiating a signalized intersection. The proposed BEV controller was tested in a case study to investigate its performance under various speed limits, roadway grades, and signal timings. In addition, a comparison of the optimal speed trajectories for BEVs and internal combustion engine vehicles (ICEVs) was conducted to investigate the impact of vehicle engine types on eco-driving solutions. Lastly, the proposed controller was implemented in microscopic traffic simulation software to test its networkwide performance. The test results from an arterial corridor with three signalized intersections demonstrate that the proposed controller can effectively reduce stop-and-go traffic in the vicinity of signalized intersections and that the BEV Eco-CACC-I controller produces average savings of 9.3% in energy consumption and 3.9% in vehicle delays.
This report summarizes work performed during Fiscal Year (FY) 2021 at Idaho National Laboratory (INL) for the U.S. Department of Energy’s Nuclear Engineering Advanced Modeling and Simulation (NEAMS) program for the Structural Materials and Chemistry Technical Area in the work package entitled “MS-21IN050106 - Structural Materials - INL.” This effort mainly focused on development and application of capabilities for engineering-scale analysis of nuclear reactor structural components in the Grizzly and BlackBear codes. These efforts include performance improvements and application of models for high-temperature component response, cluster dynamics modeling of precipitation in light water reactor pressure vessel steel, engineering-scale capability development in the areas of concrete simulation and reactor pressure vessel analysis, and preparation for and conducting an independent assessment of the adherence of these codes to software quality standards.
This project develops the dynamic modeling of hydro plants and wind generation in Sitka, Alaska. A dynamic penetration of renewables was evaluated under various conditions. The impact of altering hydro generation control to synchronous condenser control was evaluated. While the existing hydro generations are sufficient to address voltage instability, a detailed study of the active-reactive capability limits of hydro generation operation should be conducted to uptake at various wind penetration levels.
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This report details recent progress for the ASCR funded project “Integrated End-to-end Performance Prediction and Diagnosis for Extreme Scientific Workflows”. We refer to the project as IPPD/2, reflecting the 2017 renewal under expanded scope and partners In IPPD/2, we increased our research scope to include data motion. We are focusing on three major aspects: a) observe how data is generated, distributed, and used; b) analyze how data is (repeatedly) consumed with a focus both on repeated patterns and anomalies; and c) explore how to optimize data motion. This new work on data motion will augment and complement IPPD/2’s research that focused on the computational aspects of tasks. We leverage and extend our existing tools and demonstrate our work on the Belle II workflow suite as well as on workflows from NSLS-II. The highlights of our work are as follows: Provenance for Workflows: Provenance is used to provide information enabling quality control, re-run computational workflows, and reproduce results. IPPD/2 has been building a scalable provenance management system that enables the capture of provenance from the high-level workflow through all relevant system levels in one integrated environment. Leveraging this work, our recent efforts have included using provenance as an enabling technique. Workload characterization: Leveraging provenance and analysis, we characterize data movement within network, storage, and memory over a variety of workloads. This characterization enables an understanding by performance analysts and application developers of the range of behaviors that could be expected. Performance Prediction for Workflows: The goal of modeling distributed workflows is to understand performance bottlenecks and enable more intelligent task scheduling to optimize selected metrics of interest (e.g., task throughput or output data rate). IPPD/2 has utilized both analytical and AI/ML modeling methodologies for performance modeling. Advanced Scheduling and Fault Modeling for Workflows: Scheduling of large-scale scientific workflows on geographically distributed resources is a challenging problem. To improve workflow throughput, we combined novel scheduling algorithms with task predictions from performance modeling and fault modeling. Dynamically Alleviating Bottlenecks in Workflows: Exploiting our provenance, analysis, and modeling efforts, we have explored and developed several techniques for dynamically detecting and alleviating bottlenecks in data movement. In particular, we have spent considerable effort demonstrating our techniques on production-like workflow configurations.
The goal of the project was to develop data to be used for modeling the dynamic characteristics of smart inverters. The inverters were tested in both a lab setting, and a subset was deployed in residential homes for longer term data collection during real-world use.
Off-road vehicles, such as wheel loaders, excavators, and harvesters, are extensively utilized across a wide range of industries, including construction, agriculture, and mining. These machines have become indispensable in supporting the day-to-day operational needs of a nation, playing a critical role in various sectors' infrastructure and productivity. However, despite their utility, off-road vehicles are significant consumers of fossil fuels, resulting in substantial emissions that contribute to environmental degradation. This highlights the pressing need for research and technological advancements aimed at improving their energy efficiency and reducing their carbon footprint. There are, however, two primary challenges that must be addressed to achieve these goals. First, off-road vehicles typically perform both driving and working tasks simultaneously, which introduces a high level of complexity into their overall dynamic systems. Analysis the interactions between these functions is challenging. Second, research into off-road vehicles is inherently interdisciplinary, demanding expertise across several domains such as fluid power systems, vehicle dynamics, control theory, optimization techniques, and real-world implementation. Recognizing these challenges, we proposed the project titled "Optimization and Evaluation of Energy Savings for Connected and Autonomous Off-Road Vehicles" as a comprehensive solution to enhance fuel efficiency while simultaneously improving productivity. This project specifically focuses on autonomous off-road vehicles, with particular attention to wheel loaders, and seeks to develop novel methods to optimize energy consumption without sacrificing operational performance. The project integrates real-time control algorithms, vehicle dynamics modeling, and co-optimization of powertrain system and vehicle system to achieve these goals. Our optimization strategy dynamically co-optimizes critical parameters at both the powertrain and vehicle levels, including vehicle speed, working tool movements, powertrain dynamics, and engine operations in real-time. To streamline this optimization process, we developed a vehicle model that captures the key dynamics while significantly enhancing computational efficiency. This allows the system to intelligently minimize fuel consumption, all while maintaining or even improving productivity through real-time calculations during various off-road operations. To validate the effectiveness of this energy optimization method, we introduced a state-of-the-art Hardware-in-the-Loop (HIL) testbed. This reconfigurable testbed seamlessly integrates the actual engine with virtual models of the wheel loader's subsystems, allowing for accurate emulation of real-world operational loads and environments. By simulating these conditions, the HIL testbed enables us to evaluate the wheel loader’s performance under diverse working scenarios, ensuring the developed solution is applicable in real-world operations. This testbed proved to be instrumental in validating the optimization algorithms and demonstrating the system's practical effectiveness. During the evaluation and testing phase, we employed the HIL testbed to rigorously assess the energy savings and productivity improvements generated by the optimized system. The results were highly encouraging, revealing that the automated wheel loader achieved over 30% fuel savings compared to traditional, human-operated cycles, with comparable or even enhanced levels of productivity. The insights gained from this HIL-based testing provided critical validation of our approach and highlighted the potential for deploying these optimized autonomous technologies in real-world off-road vehicles.
Scenarios for deep decarbonization rely on biomass for biofuels, biopower, and bioproducts, often including negative emissions via carbon capture and storage or utilization. Despite the prominence of biomass in many deep decarbonization pathways, critical questions remain about biomass allocation, effects of transportation electrification, the pace of growth, and implications for agriculture and land use. We address these questions through a unique comparison of carbon pricing effects on the growth of biomass utilization and its effects on land use in the United States by comparing results from a multisectoral integrated assessment model, the Global Change Analysis Model [GCAM], with results from a biomass-to-biofuels system dynamics model, the Biomass Scenario Model [BSM]. We contribute to model comparison efforts by analyzing the biomass deployment needed for a scenario consistent with a "Middle of the Road" Shared Socioeconomic Pathway [SSP2] and a representative concentration pathway of 2.6 W/m2. The GCAM scenarios solve for global equilibrium conditions that are consistent with this pathway, including demands for biomass across all economic sectors and representing bioenergy with carbon capture and storage as a technology option. The BSM scenarios assess those biomass and biofuel results for the United States and identify challenges associated with that pace and amount of expansion. In the scenario analysis, we harmonize key factors such as carbon price trajectory, domestic ethanol fuel demand, ethanol blending, and arable land availability, and vary them in both models. In GCAM, we vary the carbon price, transportation electrification, ethanol blending constraints, and arable land availability inputs and the value of the carbon in land; in BSM, in addition to directly inputting certain GCAM results, we vary the maximum rate of biorefinery construction, flexibility of feedstock types across conversion processes, and policy incentives such as tax credits and renewable identification number payments. The selected carbon price trajectory results in a rapid increase in biofuel production in the United States, reaching about 9.4 EJ/year in 2060 in the highest scenario analyzed in GCAM. Results differ between the two models in timing and ultimate quantity of biomass and biofuel production. GCAM biofuel quantities generally exceed BSM amounts because CCS is applied to biofuel pathways in GCAM, and because of differences in capacity expansion and related dynamics of land allocation, biomass production, and price dynamics. These dynamics include rapid biorefinery capacity expansion in high demand cases. To satisfy this biomass demand, GCAM rapidly equilibrates land allocation, but the BSM limits the rate at which this re-allocation can occur. A further contrast with the equilibrium approach in GCAM is that the BSM represents a delay between planting and harvesting woody biomass resources. As a result of these model contrasts, feedstock costs in BSM increase more than in GCAM, and the absence of CCS in the BSM also reduces the relative economic attractiveness of biofuels production. The bottlenecks, lags, and price increases also lead to potential for volatility in feedstock price and land allocation to biomass in the BSM. GCAM has more biomass production than BSM in all scenarios, partly because of the broader, economy-wide coverage of GCAM, in contrast to BSM's exclusive focus on biofuels. In both models, trends like those of biofuels production were observed for biomass production: minimal growth without a carbon price and policy incentives, and increases with a carbon price, particularly with carbon capture and storage, because the inputs assume that biopower and biofuels decrease greenhouse gas emissions. In high policy scenarios, biomass demand is high, and the consequent high biomass prices due to the land re-allocation bottleneck in the BSM limit biofuel production even if the biorefinery capacity is expanded. However, because biomass prices do not increase as much in the low policy scenario, growth is slower and the land-reallocation bottleneck no longer dominates, such that the effect of increased capacity can be seen. Across both the models, a change in assumptions from less to more land availability increases biofuel production in both GCAM and BSM, as the upward pressure on feedstock price and volatility are both reduced.
The purpose of this project is to understand dynamic phenomena by designing dynamic models of utility-sale solar photovoltaic (PV) power plants and their interactions with grids; and construct effective coordination strategies for stability enhancement for solar PVs to respond to rapidly changing grid conditions.
Steam piping networks are essential for optimizing performance in industrial processes and district heating systems. However, dynamic models that balance thermo-hydraulic accuracy with computational efficiency remain limited. In response, this paper presents a new discretized steam pipe model based on the plug flow approach, capturing key thermo-hydraulic behaviors while simplifying steam phase change processes. Implemented in Modelica, the model accurately calculates temperature and pressure distributions along steam pipelines. To improve computational efficiency for district-scale simulations, five model simplifications are introduced: lumped thermo-hydraulic functions, empirical correlations, fluid state approximations, steady-state dynamics and inclusion of flow derivatives. These simplified models achieve 85%-98% accuracy in predicting pressure drop and condensation losses, including dynamic condensate behavior during pipe warm-up—a factor often overlooked in existing models. The models support diverse network configurations, scaling effectively to systems with multiple distribution pipes and connected building loads. Discrete models provide detailed insights but exhibit a cubic increase in simulation time as the network scales by N connected building O(N 2.42 ). In contrast, lumped models simulate 10–28 times faster than discrete, offering quadratic scaling of simulation time O(N 1.73 ). However, they still require 6 times more computation time than a lossless network, highlighting the inherent computational challenges of modeling compressible fluid flow. In conclusion, the steady-state lumped variant, with its near-linear scalability in computational time O(N 1.01 ), emerges as an efficient solution for preliminary design evaluations and extensive parametric studies.
We study the utility and performance of a Bayesian model error embedding construction in the context of molecular dynamics modeling of metallic alloys, where we embed model error terms in existing interatomic potential model parameters. To alleviate the computational burden of this approach, we propose a framework combining likelihood approximation and Gaussian process surrogates. Here we leverage sparse Gaussian process techniques to construct a hierarchy of increasingly accurate but more expensive surrogate models. This hierarchy is then exploited by multilevel Markov chain Monte Carlo methods to efficiently sample from the target posterior distribution. We illustrate the utility of this approach by calibrating an interatomic potential model for a family of gold-copper alloys. In particular, this case study highlights effective means for dealing with computational challenges with Bayesian model error embedding in large-scale physical models, and the utility of embedded model error for model diagnostics.
The power systems have faced progressively more demanding operational requirements over the last two decades. Several factors contribute to these challenging operating conditions, including load growth, aging infrastructure, increasing penetrations of distributed energy resources (DERs), electrification of the economy, and policy initiatives such as decarbonization. The power system and its components must provide high operational flexibility to mitigate these challenges. For example, the proliferation of intermittent DERs such as wind and solar has increased the need for conventional generation assets like hydropower plants to respond to sudden load-generation imbalances. The higher flexibility requirements for hydropower plants cause more wear and tear, potentially shortening the useful lifespan of hydropower turbines. To reduce the need for hydropower plants to follow sudden changes in the dispatch signal, we investigate their combined operation with the energy storage systems (ESSs; “ESS-based hybridization”). Our analyses focuses on improving the lifespan of hydropower plants through ESS-based hybridization. Wear and tear on hydropower turbines (particularly Francis turbines) is modeled using a loss-of-life concept that is based on damage experienced by the turbine due to various cycles of operation. Then, we show that using ESSs to offset some of the high variation increases the remaining life of the hydropower plants. To demonstrate this, a few modeling tools were developed for this work: (1) a dynamic model for various components of the turbine and its governor; (2) a control strategy that assigns a slow-varying dispatch signal to a hydropower unit versus a fastmoving signal to ESS, such that the overall power request remains the same; and (3) models for the financial analysis to quantify the economic merits of such a framework. We used the models we developed to analyze the dispatch pattern of an actual hydropower plant with a power output of 50 MW and a head height of 152 m. This work showed that ESS-based hybridization could extend the life of the hydropower plant by 5% on average. This extension in life was then used to estimate the economic benefit in terms of cost deferrals associated with hydropower plant maintenance and replacement: on average, $3.6 million. Sensitivity analysis with respect to the size of ESS and cost of turbines was performed to show the variation in benefits over the range of turbine costs and ESS sizes. Crucially, stacking damage reduction and lifetime extension with other ESS value streams such as providing ancillary services could substantially increase the financial benefits of ESS-based hybridization. The higher costs associated with ESS of appropriate size would make more financial sense when multiple value streams are stacked and co-optimized to extract the maximum benefit. This dimension will be explored in future work.
Ammonia is a promising alternative to hydrogen with high energy density and favorable storage and transport characteristics. However, low flammability and a propensity for high nitrogen oxide (NO x ) emissions make direct utilization challenging. Recently, two-stage rich-quench-lean (RQL) combustion strategies have shown promise in achieving low NO x emissions with ammonia. In this approach, the rich stage serves to oxidize a portion of the fuel while thermally decomposing as much of the remaining ammonia as possible, generating hydrogen. In the second (lean) stage, air is rapidly introduced, burning out the hydrogen and residual ammonia. Two-stage RQL combustion of ammonia has been investigated in the open literature both experimentally and numerically. In general, idealized chemical reactor network (CRN) models predict NO x concentrations below those of 2D/3D computational fluid dynamics models and experiments. The primary drivers of these discrepancies may be largely attributed to finite rate mixing nonadiabatic operation. The typical CRN model is comprised of a perfectly-stirred-reactor (PSR), followed by a plug-flow-reactor (PFR), meant to represent the flame, and postflame zones, respectively. In the two-stage RQL approach two PSR-PFR networks are arranged sequentially, corresponding to the rich and lean stages, with secondary air injection in between. In the authors' past work, this arrangement has demonstrated the significant sensitivity of exit NO x to the rich stage equivalence ratio, while the amount of secondary air injection was shown to be less critical. In this paper, the CRN model is extended to (1) include the impacts of heat loss and (2) utilize a partially-stirred-reactor (PaSR) approach to study the impacts of mixing on emissions performance. Varying amounts of heat loss are applied to the rich relaxation zone to understand emissions performance and changes to optimization of equivalence ratio and residence time. Premixed and nonpremixed configurations are considered in the rich stage PaSR, with varying degrees of mixing intensity to study the interaction between mixing, transport, and kinetic timescales. Critically, the impact of mixing between hot products and secondary air injection is studied to understand practical injector needs. Results show unburnt ammonia leaving the rich stage as a primary contributor to NO x emissions – driven both by increased heat loss and reduced mixing rates. Furthermore, heat losses have been shown to create conditions that are conducive to increased N 2 O formation in the lean stage. In conclusion, the results of this study will be considered in the context of developing optimized two-stage RQL combustors for ammonia.
Discrete element modeling (DEM) is an important technique for particle dynamics simulation. The field of metal additive manufacturing often utilizes DEM to simulate the rheological behaviors of powder. Standard contact and short-range interactions are sufficient in most cases but insufficient to describe the particle dynamics with the influence of an electric field. Modeling such a system requires additional physics to describe the particle–field interactions. The relevant physics has been experimentally understood but is not yet available in DEM. Here, we develop a charge exchange and an electric force module. The electric force module governs particle response to the electric field, while the charge exchange module enables particles to acquire proper charge during contact with charged geometries. We validate the modules against analytical calculations and high-speed videos of electrostatic powder deposition experiments. Notably, the model struggles to capture the initial particle levitation. We later deploy a modified electric field, as supported by static electric field simulation, to better approximate the electric field penetration into the powder layer. This modification improves the model’s capability of simulating realistic particle levitation. The results highlight the challenges of modeling particle behaviors in the electric field while demonstrating the feasibility of obtaining quantitative results, which are difficult to measure experimentally.