Individualized Degradation Modeling and Prognostics in a Heterogeneous Group via Incorporating Intrinsic Covariate Information
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Automation & Control Systems↗
SEARCH · Engineering Papers
Results for “DATA BASE MANAGEMENT”
Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.
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Autonomous Navigation and Control of UGVs' in Nuclear Power Plants - 20381
The purpose of the husky A200 ground robot is to autonomously navigate through the places where it is very hazardous for human beings to reach and operate, like nuclear power plants, chemical industries. The aim is to navigate the ground robot autonomously with an Arm mounted on the robot along with the different sensors as camera, and Lidar. The autonomous motion of the robot is controlled by the controller which uses path planner for trajectory generation of the robot. The mission planner uses the current position of the husky A200, given the way points of the initial and the destination it would extract a best possible route based on the current events provided using GMapping. The global reference frame is used for planning the way points. Creating the appropriate path and the actions required to follow the path are given by the motion planner. The motion planner depends on the active sensor data such as obstacles, lanes, based on the sensor data feasible path is generated. Feasibility of the path is determined by the dynamics of the husky and a series of points generated with certain velocity and acceleration profile. The controller adjusts the lateral, longitudinal and yaw motion of the husky to command the behaviors. The kinematic model is developed for kinematic motion of the husky and the dynamic model is developed for transient and steady state characteristics. The images and other type of data captured by the camera are processed through the computational framework used to build machine learning models. TensorFlow will be used for deep learning and to identify and classify different objects around the husky. (authors)
12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
IDAES-PSE 2.6.0 Release
The Institute for the Design of Advanced Energy Systems (IDAES) Integrated Platform is a versatile computational environment offering extensive process systems engineering (PSE) capabilities for optimizing the design and operation of complex, interacting technologies and systems. IDAES enables users to efficiently search vast, complex design spaces to discover the lowest cost solutions while supporting the full process modeling lifecycle, from conceptual design to dynamic optimization and control. The extensible, open platform empowers users to create models of novel processes and rapidly develop custom analyses, workflows, and end-user applications. IDAES-PSE 2.6.0 Release Highlights Upcoming Changes IDAES will be switching to the new Pyomo solver interface in the next release. Whilst this will hopefully be a smooth transition for most users, there are a few important changes to be aware of. The new solver interface uses a different version of the IPOPT writer (“ipopt_v2”) and thus any custom configuration options you might have set for IPOPT will not carry over and will need to be reset. By default, the new Pyomo linear presolver will be activated with ipopt_v2. Whilst are working to identify any bugs in the presolver, it is possible that some edge cases will remain. IDAES will begin deploying a new set of scaling tools and APIs over the next few releases that make use of the new solver writers. The old scaling tools and APIs will remain for backward compatibility but will begin to be deprecated. New Models, Tools and Features New Intersphinx extension automatically linking Jupyter notebook examples to project documentation New end-to-end diagnostics example demonstrated on a real problem New complementarity formulation for VLE with cubic equations of state, backward compatibility for old formulation New solver interface with presolve (ipopt_v2) in support of upcoming changes to the initialization and APIs methods, with default set to ipopt to maintain backwards compatibility; this will deprecate once all examples have been updated New forecaster and parameterized bidder methods within grid integration library Updated surrogates API and examples to support Keras 3, with backwards compatibility for older formats such as TensorFlow SavedModel (TFSM) Updated costing base dictionary to include the 2023 cost year index value Updated ProcessBlock to include information on the constructing block class Updated Flowsheet Visualizer to allow visualize() method to return value and functions Bug Fixes Fixed bug in the Modular Property Framework that would cause errors when trying to use phase-based material balances with phase equilibria. Fixed bug in Modular Properties Framework that caused errors when initializing models with non-vapor-liquid phase equilibria. Fixed typos flagged by June update to crate-ci/typos and removed DMF-related exceptions Minor corrections of units of measurement handling in power plant waste/transport costing expressions, control volume material holdup expressions, and BTX property package parameters Fixed throwing >7500 numpy deprecation warnings by replacing scalar value assignment with element extraction and item iteration calls Testing and Robustness Migrated slow tests (>10s) to integration, impacting test coverage but also yielding a nearly 30% decrease in local test runtime Pinned pint to avoid issues with older supported Python versions Pinned codecov versions to avoid tokenless upload behavior with latest version Bumped extensions to version 3.4.2 to allow pointing to non-standard install location Deprecations and Removals Python 3.8 is no longer supported. The supported Python versions are 3.9 through 3.12 The Data Management Framework (DMF) is no longer supported. Importing idaes.core.dmf will cause a deprecation warning to be displayed until the next release The SOFC Keras surrogates have been removed. The current version of the SOFC surrogate model in the examples repository is a PySMO Kriging model.
AS↗
Using SWMM for emergency response planning: A case study evaluating biological agent transport under various rainfall scenarios and urban surfaces
To assist in emergency preparedness for a biological agent terrorist attack or accidental pathogen release, potential contaminant levels and migration pathways of spores spread by urban stormwater were evaluated using a Storm Water Management Model (SWMM) of U.S. Coast Guard Base Elizabeth City, North Carolina. The high temporal-spatial resolution SWMM model was built using spore concentrations in stormwater runoff from asphalt, grass, and concrete collected from a point-scale field study. The subsequent modeled contamination scenarios included a notional plume release and point releases mimicking the field study under three rainfall conditions. The rainfall scenarios included a 6-hour natural rainfall event on Dec. 8, 2021 and two design storms (2-year and 100-year events). The observed spore concentrations from asphalt and concrete from the actual field experiment were applied to calibrate the washoff parameters in the SWMM model, using an exponential washoff function. The calibrated washoff coefficient (c 1 ) and exponent (c 2 ) were 0.01 and 1.00 for asphalt, 0.05 and 1.45 for grass, and 2.45 and 1.00 for concrete, respectively. The calibrated SWMM model simulated spore concentrations in runoff at times and magnitudes similar to the field study data. In the point release modeled scenario, the concrete surface generated 55.6% higher average spore concentrations than asphalt. Similarly, in the field experiment, a 175% (p < 0.05) higher average spore concentration in surface runoff was observed from concrete than from asphalt. Here, this study demonstrates how SWMM may be used to evaluate spore washoff from urban surfaces under different precipitation amounts, intensities, and durations, and how visualized spatial migration pathways in stormwater runoff may be used for emergency planning and remediation.
54 ENVIRONMENTAL SCIENCES↗
Fire, insect and disease‐caused tree mortalities increased in forests of greater structural diversity during drought
Abstract Structural diversity is an emerging dimension of biodiversity that accounts for size variations in organs among individuals in a community. Previous studies show significant effects of structural diversity on forest growth, but its effects on forest mortality are not known, particularly at a large scale. To address this knowledge gap, we quantified structural diversity using stem structural diversity (SSD) based on both tree diameter and height. We obtained U.S. Forest Service Forest Inventory and Analysis (FIA) data from over 2400 plots across southcentral U.S. forests that have suffered a recent drought. Using data from multiple sampling times, we calculated SSD and compared the relative importance of SSD, species diversity, functional diversity and other stand attributes in determining tree mortalities caused by fire, insects and diseases. We also used FIRETEC, a physics‐based fire model, to test the effect of SSD on canopy consumption by fire. Our results showed that (1) SSD was positively associated with tree mortalities caused by all three disturbances; (2) species richness was negatively associated with insect‐ and disease‐caused mortalities; (3) functional diversity was negatively associated with fire‐ and disease‐caused mortalities and (4) more phylogenetically related species had more similar mortality rates by insect and disease but not fire. Moreover, the FIRETEC model showed increasing canopy consumption by fire in stands with greater SSD. Together, the different tree mortalities during drought associated with SSD more consistently than the other biodiversity metrics were evaluated. Synthesis . Our results suggest that SSD could be considered in modelling forest dynamics and planning management to sustain forest health under disturbances.
54 ENVIRONMENTAL SCIENCES↗
Enhancing the Operational Resilience of Advanced Reactors with Digital Twins by Recurrent Neural Networks
Because of a lack of operational data and uncertainty in evaluation model for abnormal and accident scenarios, the established operating procedures can be biased in characterizing the reactor states and ensuring operational resilience. To reduce uncertainty associated with actual plant conditions, digital twin (DT) technology is suggested to support operator’s decision-making by effectively extracting and using knowledge of the current and future plant states from the knowledge base. This study first builds a knowledge base based on the characterization of issue space and the simulation tool. Next, this study discusses diagnosis and prognosis DTs for enhancing operational resilience by recovering the complete states of reactors and by predicting the future reactor behaviors. Finally, the decision-making module of the control system can determine the optimal control strategy that meets operational goals during loss-of-flow scenarios. To demonstrate and evaluate the DTs capability for supporting the operations of nuclear reactors, this study develops and assesses both the diagnosis and prognosis DTs in a nearly autonomous management and control system for an Experimental Breeder Reactor-II simulator during different loss-of-flow scenarios.
22 GENERAL STUDIES OF NUCLEAR REACTORS↗
Experimental Validation of a 40kW, 480V Point-to-Point DC Interlinks for Controller-Agnostic, Interoperable Networked Microgrids
This paper presents the experimental validation of point-to-point dc-interlinks for interconnecting two solar-based, laboratory-scale AC microgrids. DC interlinks provide a solution to numerous technical and operational challenges encountered in networked microgrids, including precise power flow control, stable and fast synchronization, enhanced stability, and improved voltage and frequency regulation. By decoupling microgrids through power converters, dc-interlinks enable power exchange among microgrids that can be owned by different entities (such as communities, utilities, or universities) and managed by diverse microgrid controller vendors. This characteristic makes this dc-interlinks a promising solution for networking real-world microgrids. The presented point-to-point dc interlink utilizes two four-quadrant converters: a 40kW 3-phase ac/dc regulating the dc-link voltage to 800V, and a 3-phase dc/ac controlling power flow. These converters, connected via a 20-foot dc cable, interconnect two ac microgrids operating at 480V, each featuring energy storage, photovoltaic generation, and load emulation. Experimental validation employs commercially available off-the-shelf (COTS) converters and real-world data from solar-powered microgrids in Adjuntas, Puerto Rico. To the authors’ knowledge, this work provides the first at-scale experimental validation of dc-interlinks for networked ac microgrids using COTS inverters, demonstrating their practicality and effectiveness in addressing real-world operational challenges.
Ferrari Maglia, Max [ORNL]↗
An improved Method for Determining Transient Fuel Dilution of Oil in an Internal-Combustion Engine Using Laser-Induced Florescence and Multivariate Least Square Calibration
An optical diagnostic, based on laser-induced fluorescence (LIF), has been developed for on-engine measurements of real-time fuel dilution of engine oil or fuel in oil (FIO). Fuel dilution of oil is broadly relevant to advancing engine technology including durability, calibration, and catalyst-system management, and believed to promote destructive stochastic pre-ignition (SPI) during high-load engine operations. While standard (e.g., ASTM D3524-90) methods are not capable of real-time transient measurements, the LIF technique resolves transient dilution on the minutes time scale. We have expanded on our original FIO instrument development by introducing an improved analysis based on multivariate least square chemometrics analysis. The measurement uses a fuel dye (180–1300 parts per million, by mass) and monitors for its presence in the oil using 532 nm excitation and LIF. While the original FIO instrument utilized a two-color ratio method for analysis, the improved chemometric analysis uses the fully resolved LIF dye spectra to provide better predictive FIO accuracy (>92%) over a wide FIO range (1.5–14%) typical of engine application. We also investigate the effect of oil temperature on the LIF signal. Limited engine applications for demonstrating and validating the improved FIO instrument are shown, and the related data used to quantify practical detection limit and sensitivity. The improved analysis is insensitive to laser power fluctuation and change in detector integration time, providing an excellent FIO sensitivity (1–2%) and detection limit (0.01 %FIO) over a wide range of loads and injection timings, illustrating this updated approach to be a promising tool for advancing engine technology.
42 ENGINEERING↗
Automated qualification data tool for high temperature metallic materials
This report describes a framework for storing, processing, and displaying qualification data for high temperature mechanical properties. The framework automates the process of generating design data from mechanical test results, for example for a data qualification report for the ASME Boiler \& Pressure Vessel Code. The framework has three parts: a data storage model with common formats for several types of typical mechanical property tests, a backend based on the \pycreep Python library for correlating and extrapolating the data to generate design material properties and allowable stresses, and a demonstration user interface for displaying, sorting, and filtering the data and exploring different options for modeling the design mechanical properties. The report discusses the options available for data processing, with illustrations from real test data on Alloy 617, Alloy 709, Alloy 740H, and Laser-Powder Bed Fusion 316H. The framework is complete for ASME type data analysis and will be used to store test data generated by the Department of Energy, Office of Nuclear Energy, Advanced Materials and Manufacturing Technologies sponsored qualification programs. Future work could extend the tool to other types of material properties and/or expand the demo user interface to make it accessible across the AMMT program.
36 MATERIALS SCIENCE↗
Fluorine Limits and Impacts in High-Level Waste Glass Compositions
The impact of elevated fluorine (F) content on Hanford high-level waste (HLW) glasses has not previously been studied in detail. This effort represents the first systematic study to determine what F concentration limits should be used for the design of alkali-borosilicate-based Hanford Waste Treatment and Immobilization Plant (WTP) HLW glasses, and to document the technical basis for that limit. If alkali borosilicate glass made from Hanford HLW can accommodate a large amount of F, the large capital costs for complex sludge washing facilities may be avoided, as would much of the operational costs and negative schedule impacts associated with handling the large volumes of water required to dissolve these salts. In order to determine a limit for F in likely HLW glass compositions, an evaluation was conducted on glasses with F ≤ 0.90 mass% from previous nuclear waste glass studies. The collected dataset contains 239 glasses (232 HLW glasses and 7 LAW glasses) including 109 glasses with 0.9 ≤ F mass% ≤ 2.5, 116 with 2.5 < F mass% ≤ 8.0, and 14 with F mass% ≥ 8 (max. F mass% = 17.42). The collected composition and property data were analyzed to determine the basis for the F tolerance, i.e. the maximum F concentration that can be processed without potential issues. Fluorine volatility, product consistency test (PCT) response, liquidus temperature (T L ), glass melt viscosity, and crystallinity have been investigated. No limits for F concentration can be made based on F volatility, T L , or glass melt viscosity, because the data show that high F in glasses do not indicate, with high probability, being restricted by those property constrains. However, crystallinity and PCT response were used to estimate the F tolerance. The results show that glasses with high F (≥ 0.90 mass%) are more likely to form large fractions of F-containing crystal phases which may increase PCT responses, i.e. decrease the glass durability. Based on the results of crystallinity and PCT data, the F tolerance of 4.5 mass% is estimated. There is no evidence of other glass components, such as calcium oxides and alkali metal oxides have combined impacts with F on the glass properties. Overall, the available high-F glass data is limited, especially in the designed HLW glass composition regions. Future work on formulation and testing of HLW glasses with F ≥ 0.9 mass% will close the data gaps and expand operational flexibility with respect to the fluoride tolerances. Volatility of F from melters and corrosion of materials in contact with glass melts are important for processing of high-F wastes; yet no test data are currently available. It is recommended tests be conducted to address these two potential issues.
12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
Analysis of SCALE Criticality and Sensitivity Calculations for Reflected HEU Cylinders [Abstract]
The SCALE code package offers several nuclear data libraries to support Monte Carlo (MC) transport, as well as MC-based derivation of $\kappa$ eff sensitivity and uncertainty (S/U) data. The CSAS sequence using the KENO MC code can utilize continuous-energy (CE) cross sections, or pre-generated multigroup (MG) cross section libraries. The use of MG libraries introduces bias into calculations in exchange for faster transport solutions. The TSUNAMI-3D sequence also utilizes KENO MC calculations. TSUNAMI-3D has two CE calculational methods: the Iterated Fission Probability (IFP) method, and the Contribution-Linked eigenvalue sensitivity/Uncertainty estimation via Tracklength importance CHaracterization (CLUTCH) method. Previous work has shown poor agreement between CLUTCH and confirmatory direct perturbation calculations in specific applications, e.g., fissionable and polyethylene reflectors
73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
Analytical-based simulation approach for an anion exchange membrane fuel cell
An analytical and empirical-based 1-D, non-isothermal, steady-state model for anion exchange membrane fuel cell capable of capturing two-phase phenomena is presented in this study. Coupled multi-physics including mass and charge transport, electrochemical reactions, heat transfer, and two-phase water transport are considered in the model and the simulated results are compared to experimental data. To better represent actual material properties and localized conditions, the model applies multilayer discretization in the gas diffusion electrode to enhance prediction accuracy. The model successfully predicts the baseline performance at 70 °C, 131 kPa abs., 92% RH with pure H 2 /O 2 gas as well as the limiting current at 10% H 2 . The robust simulation approach allows for simplistic and accurate estimation of cell performance without the complications of applying two-phase parameters and expensive computational need for numerical models. In addition, the results from the sensitivity studies of material properties and operating conditions provide valuable insights on water management strategies and optimal component design for advancing anion exchange membrane fuel cell technology.
1-D model↗
Enabling Cybersecurity, Situational Awareness and Resilience in Distribution Grids with High Penetration of Photovoltaics (CARE-PV) (Final Report)
Since legacy distribution systems have very limited visibility beyond the substation, high penetration of PV at the grid edge presents some unique operational challenges. One approach to address these challenges is to use information from advanced metering infrastructure (AMI) and µPMUs. However, exploiting this information is impacted by a number of factors, including multi-timescale measurements, volume of data generated, communication network impairments (e.g., information loss and latency) and susceptibility to cyber-attacks. Therefore, one of the critical tasks involved in the management of a distribution grid is to develop complete situational awareness by integrating cyber-security mechanisms with state estimation strategies and leveraging this situational awareness to assure energy services at strategic locations while exploiting AMI/PV inverter/ µPMU data. This CARE-PV project addresses the fundamental challenges in situational awareness and resilience to cyber and physical vectors by exploiting the synergy between innovative modeling, estimation, data analytics, testing and validation using smart PV inverters designed at K-State and facilities at NREL. Specifically, the project involved the development, testing and validation of the following novel enabling technologies: (Thrust 1) Resilience to cyber vectors that impact data integrity was addressed via a two-level defense strategy that combines cyber intrusion detection using self-learning, cooperative smart PV inverters, and a novel moving target defense framework to combat data integrity attacks. (Thrust 2) Resilience to cyber-physical vectors that impact situational awareness by limiting data availability was addressed via novel centralized and decentralized, sparsity-based static and dynamic state estimation approaches that enhance observability even when the underlying system is unobservable. (Thrust 3) Leveraging a unique probabilistic sensitivity analysis approach accompanied by one-of-a-kind dominant influencer set computation, the vulnerability of critical infrastructure at strategic locations was evaluated so that proactive PV-based control strategies can be used to support operations under normal/outage scenarios. These CARE-PV project innovations were demonstrated on both small-scale IEEE and larger utility-scale testbeds (Thrust 4). Feedback from Industry Advisory Board members was used to formulate a commercialization pathway for a subset of CARE-PV technologies. These CARE-PV technologies will ultimately lead to reliable and secure, large-scale integration of renewable energy and mitigate the risk of energy disruption resulting from cyber incidents and other emerging threats within the energy environment.
14 SOLAR ENERGY↗
Representing cropping systems with the MEMS 2 ecosystem model
Abstract Croplands have been the focus of substantial investigation due to their considerable potential for sequestering carbon. Understanding the potential for soil organic carbon (SOC) sequestration and necessary management strategies will be enabled with accurate process‐based models. Accurately representing crop growth and agricultural practices will be critical for realistic SOC modeling. The MEMS 2 model incorporates a current understanding of SOC formation and stabilization, measurable SOC pools, and deep SOC dynamics and is seen as a highly promising tool to inform management intervention for SOC sequestration. Thus far, MEMS 2 has been developed to represent grasslands. In this study, we further developed MEMS 2 to model annual grain crops and common agricultural practices, such as irrigation, fertilization, harvesting, and tillage. Using four Ameriflux sites, we demonstrated an accurate simulation of crop growth and development. Model performance was strong for simulating aboveground biomass (index of agreement [d] range of 0.89–0.98) and green leaf area index (dfrom 0.90 to 0.96) across corn, soybean, and winter wheat. Good agreement with observations was also achieved for net ecosystem CO 2 exchange (dfrom 0.90 to 0.96), evapotranspiration (dfrom 0.91 to 0.94), and soil temperature (dof 0.96), while discrepancy with the available soil water content data remain (dfrom 0.14 to 0.81 at four depths to 100 cm). While we will continue model testing and improvement, MEMS 2 (version 2.14) has now demonstrated its ability to effectively simulate the growth of common grain crops and practices.
Agriculture↗
Evaluating the Feasibility of Transactive Approach for Voltage Management Using Inverters of a PV Plant
This article evaluates the feasibility of a double-auction-based Transactive Energy System (TES) for engaging the reactive power (Var) capability of inverters in a utility-scale pho¬tovoltaic (PV) plant for voltage management in distribution feed¬ers. In this approach, a PV plant owner (seller) provides Var supply curves in terms of price-quantity pairs consider¬ing the inverters’ P-Q capability, efficiency, opportunity cost for real power curtail¬ment, losses, etc. At the same time, the utility (buyer) proposes Var demand curves in price-quantity pairs exhibiting the marginal price of Var. Then, market clearing points are obtained from the intersection points of supply and demand curves which are then used to create Var dispatch sig-nals from the PV plant. To conduct a fea¬sibility study of this approach, an Australian distribution network with a utility-scale PV plant (capacity 3.275 MWP) is modeled in RSCAD and simu¬lated in real-time on MATLAB, RSCAD-RTDS co-simulation platform using real historical data. Consid¬ering a use case, namely, conservation voltage reduction (CVR), the operational feasibility along with cost-benefit analysis is demonstrated in software-in-the-loop (SIL) and hardware-in-the-loop (HIL) platform. Another use case, exploring the benefit from tap-change reduction of step-voltage-regulator, is investigated. These studies explore further use cases, e.g., PV hosting capacity, network reconfiguration, etc., to be incorporated in TES for experiencing substantial economic benefits.
Alam, Mollah Rezaul↗
srlife : A software tool for estimating the life of high temperature concentrating solar receivers. Part II – Ceramic receivers
As Concentrating Solar Power (CSP) technologies aim for higher operating temperatures to enhance efficiency and meet industrial process heat demands, high-temperature metallic materials, including nickel-based superalloys, face challenges in maintaining structural integrity. Advanced ceramics offer a promising alternative due to their superior high-temperature strength. However, accurately assessing the performance of ceramic components requires a fundamentally different approach from that used for metallic components. This Part II of a two-part paper describes the integration of ceramic statistical failure models within srlife – an open-source tool for predicting the life of high-temperature CSP receivers. These models account for the inherent variability in ceramic strength, as well as the effects of subcritical crack growth (SCG) under high temperature cyclic loads. Here, the paper includes an example problem that demonstrate the process of evaluating ceramic receivers using srlife. Part I details the life estimation process for metallic receivers (i.e. creep-fatigue life) along with input and output data structure, thermohydraulic analysis, and structural analysis. The complete tool is available as open-source software at https://github.com/srlife-project/srlife and can be installed via the PyPi package manager (https://pypi.org). By supporting both ceramic and metallic receiver analyses, srlife facilitates fair comparisons between competing metallic and ceramic designs, enabling accurate evaluations of plant efficiency and the economic benefits of ceramic solar receivers and other components.
High temperature ceramic receivers↗
Fine-scale evaluation of two standard 16S rRNA gene amplicon primer pairs for analysis of total prokaryotes and archaeal nitrifiers in differently managed soils
The advance of high-throughput molecular biology tools allows in-depth profiling of microbial communities in soils, which possess a high diversity of prokaryotic microorganisms. Amplicon-based sequencing of 16S rRNA genes is the most common approach to studying the richness and composition of soil prokaryotes. To reliably detect different taxonomic lineages of microorganisms in a single soil sample, an adequate pipeline including DNA isolation, primer selection, PCR amplification, library preparation, DNA sequencing, and bioinformatic post-processing is required. Besides DNA sequencing quality and depth, the selection of PCR primers and PCR amplification reactions arguably have the largest influence on the results. This study tested the performance and potential bias of two primer pairs, i.e., 515F (Parada)-806R (Apprill) and 515F (Parada)-926R (Quince) in the standard pipelines of 16S rRNA gene Illumina amplicon sequencing protocol developed by the Earth Microbiome Project (EMP), against shotgun metagenome-based 16S rRNA gene reads. The evaluation was conducted using five differently managed soils. We observed a higher richness of soil total prokaryotes by using reverse primer 806R compared to 926R, contradicting to in silico evaluation results. Both primer pairs revealed various degrees of taxon-specific bias compared to metagenome-derived 16S rRNA gene reads. Nonetheless, we found consistent patterns of microbial community variation associated with different land uses, irrespective of primers used. Total microbial communities, as well as ammonia oxidizing archaea (AOA), the predominant ammonia oxidizers in these soils, shifted along with increased soil pH due to agricultural management. In the unmanaged low pH plot abundance of AOA was dominated by the acid-tolerant NS-Gamma clade, whereas limed agricultural plots were dominated by neutral-alkaliphilic NS-Delta/NS-Alpha clades. This study stresses how primer selection influences community composition and highlights the importance of primer selection for comparative and integrative studies, and that conclusions must be drawn with caution if data from different sequencing pipelines are to be compared.
16S rRNA gene amplicon Illumina sequencing↗
Thoroughly testing and integrating hundreds of Pull Requests per month: ROOT’s new Cost-efficient and Feature Rich GitHub-based CI
ROOT is an open source framework, freely available on GitHub, at the heart of data acquisition, processing and analysis of HE(N)P experiments, and beyond. It is developed collaboratively: contributions are not authored only by ROOT team members, but also by the user community at large: developers and scientists from universities, labs as well as the private sector. More than 1500 GitHub Pull Requests are merged on average per year. It is in this context that code integration acquires a primary role. The review of code contributions isn’t enough: not only they need to be thoroughly reviewed, they also need to be thoroughly tested through a powerful CI infrastructure on several different platforms to comply with the high code quality standards of the project. Since the end of 2023, ROOT moved its continuous integration system from Jenkins to GitHub Actions. In this contribution, we characterise the transition to the GitHub CI, focussing on our strategy, its implementation and the lessons learned, as well as the advantages the new system offers with respect to the previous one. Particular emphasis will be given to the evaluation of the cost-benefit ratio for Jenkins and GitHub Actions for the ROOT project. We also describe how we manage to run in less than one hour thousands of unit, integration, functional and end-to-end tests on different flavours of Windows, four versions of macOS, as well as about ten of the most used Linux distributions, taking advantage of the CERN computing infrastructure.
Piparo, Danilo [CERN]↗