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At least 37 records · Page 2

Machine Learning (ML) Classifier to Assist Metadata Creation

The Atmospheric Radiation Measurement (ARM) Data Center is responsible for the timely collection, archival, and curation of science data products. These products are freely available through an online data repository. Metadata creation is paramount for scientific users to find and access over seven petabytes of atmospheric science data. The hierarchical metadata structure allows users to search for information at both broad and narrow levels. This project aims to leverage 30 years’ worth of manually created metadata to enable machine predictions of broad-term classifications from narrow-term descriptions. These classification predictions would assist metadata coordinators with their term selections. This paper discusses the cleaning and preprocessing of the training data, the pipeline developed to determine the best model for this task, and the creation of an API metadata classifier for ARM measurement metadata. Our results show that the Linear Support Vector Classification (LinearSVC) algorithm, along with the Term Frequency – Inverse Document Frequency (TF-IDF) vectorizer, is well-suited for our multi-class classification task. Lengthier input training data led to better results, and artificial balancing was unnecessary for this particular use case. This predictive classifier enhances efficiency in metadata creation, as well as supports greater consistency and accuracy in metadata tagging.

Collier, Hannah [ORNL] (ORCID:0000000341284292)↗

Annotated Bibliography of Literature Addressing the Low-Income Energy Affordability in the United States

Oak Ridge National Laboratory (ORNL), with support from the Georgia Institute of Technology, conducted a “meta review” of low-income energy affordability in the United States. The first step of that review involved the creation of an annotated bibliography of literature focused on low-income household energy affordability, needs, and gaps. This bibliography includes abstracts of the published literature discussed in the meta review. This annotated bibliography describes the relatively current literature (published from 2010 to 2019) that examines low-income energy affordability in the United States. As an initial search criterion, literature was compiled from journal publications archived in Web of Science and Scopus databases.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

WISE-PS1-STRM: neural network source classification and photometric redshifts for WISE×PS1

ABSTRACT We cross-match between the WISE All-Sky and PS1 3π DR2 source catalogues. The resulting catalogue has 354 590 570 objects, significantly fewer than the parent PS1 catalogue, but its combination of optical and infrared colours facilitate both better source classification and photometric redshift estimation. We perform a neural network-based classification of the objects into galaxies, quasars, and stars, then run neural network-based photometric redshift estimation for the galaxies. The star sample purity and quasar sample completeness measures improve substantially, and the resulting photo-z’s are significantly more accurate in terms of statistical scatter and bias than those calculated from PS1 properties alone. The catalogue will be a basis for future large-scale structure studies, and will be made available as a high-level science product via the Mikulski Archive for Space Telescopes.

79 ASTRONOMY AND ASTROPHYSICS↗

2025 Atmospheric Radiation Measurement (ARM) Annual Report

ARM is a multi-laboratory, U.S. Department of Energy (DOE) Office of Science user facility and a key contributor to atmospheric research efforts. For more than 30 years, ARM has supported the DOE and Office of Science missions by providing atmospheric observations to enable scientific discovery, transform our understanding of the atmosphere, and evaluate and improve the accuracy of atmospheric models. ARM’s cutting-edge capabilities for scientists include continuously operating ground-based observatories, aerial observation platforms, and high performance computing.

54 ENVIRONMENTAL SCIENCES↗

The MolSSI QCArchive project: An open-source platform to compute, organize, and share quantum chemistry data

The Molecular Sciences Software Institute's (MolSSI) Quantum Chemistry Archive (QCArchive) project is an umbrella name that covers both a central server hosted by MolSSI for community data and the Python-based software infrastructure that powers automated computation and storage of quantum chemistry (QC) results. The MolSSI-hosted central server provides the computational molecular sciences community a location to freely access tens of millions of QC computations for machine learning, methodology assessment, force-field fitting, and more through a Python interface. Facile, user-friendly mining of the centrally archived quantum chemical data also can be achieved through web applications found at the website. The software infrastructure can be used as a standalone platform to compute, structure, and distribute hundreds of millions of QC computations for individuals or groups of researchers at any scale. The QCArchiveInfrastructure is open-source (BSD-3C), code repositories can be found at github, and releases can be downloaded via PyPI and Conda. This article is categorized under: Electronic Structure Theory > Ab Initio Electronic Structure Methods Software > Quantum Chemistry Data Science > Computer Algorithms and Programming

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Warming of the Willamette River, 1850–present: the effects of climate change and river system alterations

Abstract. Using archival research methods, we recovered and combined data from multiple sources to produce a unique, 140-year record of daily water temperature (Tw) in the lower Willamette River, Oregon (1881–1890, 1941–present). Additional daily weather and river flow records from the 1850s onwards are used to develop and validate a statistical regression model of Tw for 1850–2020. The model simulates the time-lagged response of Tw to air temperature and river flow and is calibrated for three distinct time periods: the late 19th, mid-20th, and early 21st centuries. Results show that Tw has trended upwards at 1.1 ∘C per century since the mid-19th century, with the largest shift in January and February (1.3 ∘C per century) and the smallest in May and June (∼ 0.8 ∘C per century). The duration that the river exceeds the ecologically important threshold of 20 ∘C has increased by about 20 d since the 1800s, to about 60 d yr−1. Moreover, cold-water days below 2 ∘C have virtually disappeared, and the river no longer freezes. Since 1900, changes are primarily correlated with increases in air temperature (Tw increase of 0.81 ± 0.25 ∘C) but also occur due to alterations in the river system such as depth increases from reservoirs (0.34 ± 0.12 ∘C). Managed release of water affects Tw seasonally, with an average reduction of up to 0.56 ∘C estimated for September. River system changes have decreased variability (σ) in daily minimum Tw by 0.44 ∘C, increased thermal memory, reduced interannual variability, and reduced the response to short-term meteorological forcing (e.g., heat waves). These changes fundamentally alter the response of Tw to climate change, posing additional stressors on fauna.

54 ENVIRONMENTAL SCIENCES↗

Atmospheric Radiation Measurement (ARM) Management Plan

Mission and Vision Statements for the U.S. Department of Energy (DOE)’s Atmospheric Radiation Measurement (ARM) Climate Research Facility Mission The ARM Climate Research Facility, a DOE scientific user facility, provides the climate research community with strategically located in situ and remote-sensing observatories designed to improve the understanding and representation, in climate and earth system models, of clouds and aerosols as well as their interactions and coupling with the Earth’s surface. Vision To provide a detailed and accurate description of the Earth atmosphere in diverse climate regimes to resolve the uncertainties in climate and Earth system models toward the development of sustainable solutions for the nation's energy and environmental challenges.

54 ENVIRONMENTAL SCIENCES↗

ESGF Future Architecture Report (V.1.1)

This document reports the findings of the Earth System Grid Federation Future Architecture Face-to-Face Meeting held in the UK 5-7 November 2019, attended by technical representatives from the ESGF partner organisations. ESGF is an International federated archive that provides access to Earth science data. It is fundamentally a distributed file management system with its main function being data dissemination through the provision of services for efficient replication and search. It has been in operation for over ten years and has undergone continuous improvements and enhancements over this time span. The Future Architecture is a major review of the software system including a fundamental reassessment of its requirements with a view to develop a new overall system architecture. This has been initiated in the light of challenges around the maintenance of the existing software legacy and a changing technology landscape and practices in the communities it serves. The work is being carried out under the oversight of the ESGF Executive Committee1,2 and is coordinated activity between ESGF and the European IS-ENES3 project.

54 ENVIRONMENTAL SCIENCES↗

US Department of Energy, Office of Science High Performance Computing Facility Operational Assessment 2021: Oak Ridge Leadership Computing Facility

Oak Ridge National Laboratory’s (ORNL’s) Leadership Computing Facility (OLCF) continues to surpass its operational target goals of supporting users; delivering fast, reliable computational ecosystems; creating innovative solutions for high-performance computing (HPC) needs; contributing to the community to build the next generation HPC workforce, and managing risks, safety, and security associated with operating some of the most powerful computers in the world. The results can be seen in the cutting-edge science conducted by users and the praise from the research community. Calendar year (CY) 2021 saw continued excellence in research supported by the OLCF’s leadership-class computing resources, including Summit (the nation’s most powerful supercomputer), the global scratch file system Alpine, the Scalable Protected Infrastructure (SPI), the Exploratory Visualization Environment for Research in Science and Technology (EVEREST), and the archival mass-storage resource High-Performance Storage System (HPSS). While maintaining access and exceptional user support for Summit, the OLCF continued to make progress on the installation and deployment of Frontier, which will be the nation’s first exascale system when it comes online at the start of CY 2023. Users have already begun running and optimizing scientific codes on Crusher, the OLCF test and development system equipped with Frontier’s architecture. Throughout the year, the OLCF maintained a strong culture of operational excellence, including risk management, workplace safety, and cybersecurity. The OLCF’s rigorous risk management strategy anticipated and mitigated risks, and at this time there are no high-priority operational risks. Similarly, ORNL and the OLCF were committed to operating under the US Department of Energy’s (DOE’s) safety regulations that ensure a safe workplace. Technical staff tracked and monitored existing threats and vulnerabilities within the OLCF while continually developing tools and practices to enhance operations without increasing the facility’s risk. CY 2021 was filled with outstanding results and accomplishments, including a very high rating from users on overall satisfaction for the eighth consecutive year; a tremendous number of node hours delivered to 1,671 researchers on Summit; and the successful delivery of the allocation split of roughly 60%, 20%, and 20% of core-hours offered for the Innovative and Novel Computational Impact on Theory and Experiment (INCITE), Advanced Scientific Computing Research Leadership Computing Challenge (ALCC), and Director’s Discretionary (DD) programs, respectively (Section 2). COVID-19 research remained a focus in 2021, and the ALCC and DD programs allocated over 1 million Summit hours to the COVID-19 High Performance Computing Consortium. These accomplishments, coupled with the high utilization rates (i.e., overall and capability usage), represent the fulfillment of the promise of leadership class machines: efficient facilitation of leadership-class computational applications.

97 MATHEMATICS AND COMPUTING↗

Total Column Infrared Trace Species in Baltimore Field Campaign Report

The U.S. Department of Energy’s Atmospheric Radiation Measurement (ARM) User Facility Coast-Urban-Rural Atmospheric Gradient Experiment (CoURAGE), including the first ARM Mobile Facility (AMF1), occurred during 2025 at a site in Baltimore, Maryland owned by Morgan State University. Our goal was to supplement the measurements taken by locating a Bruker EM27/SUN spectrometer at the site to make total column measurements of trace gases in the near-infrared. This EM27 location was one of six locations in the Washington, D.C./Maryland region during the summer of 2025, and the network of observations was intended to help us better understand emissions in the region, as well as how emissions interact with meteorology to affect air quality and other atmospheric attributes.

54 ENVIRONMENTAL SCIENCES↗

Characterization of Organosulfates and Organonitrates in Vertically Resolved Aerosols over the Southern Great Plains Field Campaign Report

Aerosol is the largest individual source of uncertainty in assessing the Earth’s radiative balance due to poorly understood aerosol processes and aerosol-cloud interactions. Thus, to constrain aerosol’s climate impacts, it is critical to understand aerosol compositions at high elevations. Organic material accounts for about 20-80% of total aerosol mass in the atmosphere and is known to play a key role in aerosol processes and cloud formation. In prior research, characterization of aerosol molecular composition has been mostly carried out at ground level. In these ground-level measurements, total speciated organosulfates and organonitrates may contribute significantly to organic aerosol mass on the order of 10-40%, most of which are from abundant biogenic volatile organic compounds such as isoprene and monoterpenes. Organosulfates and organonitrates have also been shown to be present in substantial amounts in cloud water, suggesting that they can be transported and/or directly formed at high elevations. On the other hand, the less common and more expensive aircraft studies have performed high-altitude measurements, but were often limited in the number of different altitudes sampled and in sample collection under consistent conditions. Therefore, the vertical distributions of key aerosol components such as organosulfates and organonitrates are not well understood and have not been extensively studied. Nevertheless, it is important to understand how organosulfates and organonitrates in aerosols are distributed, transformed, participate in aqueous-phase processes, and interact with high-altitude clouds.

54 ENVIRONMENTAL SCIENCES↗

Quantum Chemistry Common Driver and Databases (QCDB) and Quantum Chemistry Engine (QCEngine): Automation and interoperability among computational chemistry programs

We report that community efforts in the computational molecular sciences (CMS) are evolving toward modular, open, and interoperable interfaces that work with existing community codes to provide more functionality and composability than could be achieved with a single program. The Quantum Chemistry Common Driver and Databases (QCDB) project provides such capability through an application programming interface (API) that facilitates interoperability across multiple quantum chemistry software packages. In tandem with the Molecular Sciences Software Institute and their Quantum Chemistry Archive ecosystem, the unique functionalities of several CMS programs are integrated, including CFOUR, GAMESS, NWChem, OpenMM, Psi4, Qcore, TeraChem, and Turbomole, to provide common computational functions, i.e., energy, gradient, and Hessian computations as well as molecular properties such as atomic charges and vibrational frequency analysis. Both standard users and power users benefit from adopting these APIs as they lower the language barrier of input styles and enable a standard layout of variables and data. These designs allow end-to-end interoperable programming of complex computations and provide best practices options by default.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The DSA Toolkit Shines Light Into Dark and Stormy Archives

Web archive collections are created with a particular purpose in mind. A curator selects seeds, or original resources, which are then captured by an archiving system and stored as archived web pages, or mementos. The systems that build web archive collections are often configured to revisit the same original resource multiple times. This is incredibly useful for understanding an unfolding news story or the evolution of an organization. Unfortunately, over time, some of these original resources can go off-topic and no longer suit the purpose for which the collection was originally created. They can go off-topic due to web site redesigns, changes in domain ownership, financial issues, hacking, technical problems, or because their content has moved on from the original topic. Even though they are off-topic, the archiving system will still capture them, thus it becomes imperative to anyone performing research on these collections to identify these off-topic mementos. Hence, we present the Off-Topic Memento Toolkit, which allows users to detect off-topic mementos within web archive collections. The mementos identified by this toolkit can then be separately removed from a collection or merely excluded from downstream analysis. The following similarity measures are available: byte count, word count, cosine similarity, Jaccard distance, Sørensen-Dice distance, Simhash using raw text content, Simhash using term frequency, and Latent Semantic Indexing via the gensim library. We document the implementation of each of these similarity measures. We possess a gold standard dataset generated by manual analysis, which contains both off-topic and on-topic mementos. Using this gold standard dataset, we establish a default threshold corresponding to the best F1 score for each measure. We also provide an overview of potential future directions that the toolkit may take.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Data from: "Warming of alpine tundra enhances belowground production and shifts community towards resource acquisition traits"

This archive contains data used to draw conclusions in “Warming of alpine tundra enhances belowground production and shifts community towards resource acquisition traits”, by Yang et al. 2020. Data were collected on Niwot Ridge, in an alpine meadow within the Alpine Treeline Warming Experiment (ATWE) field sites in Colorado, USA. Samples were also processed in the U.S. Geological Survey Forest and Rangeland Ecosystem Science Center, in Boise, Idaho. File formats in this archive include comma-separated values (.csv), portable document format (.pdf), Microsoft Excel (.xlsx), and two types of geospatial files: keyhole markup language (.kml), and ESRI shapefiles (.shp). Leaf scans are .jpg images, and root scans are .tiff/.tif images.The .csv files can be opened using R, Microsoft Excel, or any simple text-editing software such as TextEdit and Notepad. Microsoft Excel files can be opened using Microsoft Excel, and .pdf files can be opened with Adobe Acrobat Reader, Preview, or other compatible programs. Scanned images can be opened using any photo and/or picture viewing software.The .kml file can be opened using Google Earth and Google Maps, and the shapefiles can be opened by any programs compatible with shapefiles, such as the ArcGIS Desktop suite, and QGIS.------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Measures of belowground net primary productivity (BNPP) are required to understand whether aboveground net primary production (ANPP) changes reflect changes in allocation or are indicative of a whole plant NPP response. Plant functional traits provide a key way to scale from the individual plant to the community level, and provide insight into drivers of NPP responses to environmental change. We used infrared heaters to warm an alpine plant community at Niwot Ridge, Colorado, and applied supplemental water to compensate for soil water loss induced by warming. We measured ANPP, BNPP, and leaf and root functional traits across treatments after 5 years of continuous warming. Community-level ANPP and total NPP (ANPP + BNPP) did not respond to heating or watering, but BNPP increased in response to heating. Heating decreased community-level leaf dry matter content and increased total root length, indicating a shift in strategy from resource conservation to acquisition in response to warming.

13C/12C isotope ratio↗

Benchmarking second and third-generation sequencing platforms for microbial metagenomics

Shotgun metagenomic sequencing is a common approach for studying the taxonomic diversity and metabolic potential of complex microbial communities. Current methods primarily use second generation short read sequencing, yet advances in third generation long read technologies provide opportunities to overcome some of the limitations of short read sequencing. Here, we compared seven platforms, encompassing second generation sequencers (Illumina HiSeq 300, MGI DNBSEQ-G400 and DNBSEQ-T7, ThermoFisher Ion GeneStudio S5 and Ion Proton P1) and third generation sequencers (Oxford Nanopore Technologies MinION R9 and Pacific Biosciences Sequel II). We constructed three uneven synthetic microbial communities composed of up to 87 genomic microbial strains DNAs per mock, spanning 29 bacterial and archaeal phyla, and representing the most complex and diverse synthetic communities used for sequencing technology comparisons. Our results demonstrate that third generation sequencing have advantages over second generation platforms in analyzing complex microbial communities, but require careful sequencing library preparation for optimal quantitative metagenomic analysis. Our sequencing data also provides a valuable resource for testing and benchmarking bioinformatics software for metagenomics.

59 BASIC BIOLOGICAL SCIENCES↗

Baseline Climate Variables for Earth System Modelling

The Baseline Climate Variables for Earth System Modelling (ESM-BCVs) are defined as a list of 135 variables which have high utility for the evaluation and exploitation of climate simulations. The list reflects the most frequently used elements of the Coupled Model Intercomparison Project Phase 6 (CMIP6) archive. Successive phases of CMIP have supported strong results in science and substantially influence international climate policy formulation. This paper responds to both interest in exploiting CMIP data standards in a broader range of climate modelling activities and a need to achieve greater clarity about the significance and intention of variables in the CMIP Data Request. As Earth system modelling archives grow in scale and complexity, there are emerging problems associated with weak standardisation at the variable collection level. That is, there are good standards covering how specific variables should be archived, but this paper fills a gap in the standardisation of which variables should be archived. The ESM-BCV list is intended as a resource for ESM intercomparison projects (MIPs) developing requests to enable greater consistency among MIPs and as a reference for modelling centres to enhance consistency within MIPs. Provisional planning for the CMIP7 Data Request exploits the ESM-BCVs as a core element. The baseline variable list includes 98 variables which have modest or minor data volume footprints and could be generated systematically when simulations are produced and archived for exploitation by the World Climate Research Programme (WCRP) community. A further 35 variables are classed as “high volume” and are only suitable for production when the resource implications are justified.

Juckes, Martin [University of Oxford (United Kingd↗

CICE Consortium Progress Report, June 2018 - December 2019

The CICE Consortium accomplished a number of major upgrades to our sea ice model code, scripts and testing infrastructure, while strengthening our visibility in the international modeling community. We released CICE versions 6.0.0, 6.0.1, 6.0.2 and 6.1.0, all of which include updated releases of Icepack. Major new capabilities include a floe size distribution, new coupling infrastructure, improvements to all of CICE’s dynamics options, a new atmospheric data set for historical simulations, overhauled documentation, and more robust and flexible scripts for running and testing the code. Several key testing processes were automated this year. In addition, the team is actively engaged in planning our first user workshop and tutorial in February 2020. In addition to overseeing modifications to the Consortium’s resources and code releases, management tasks included meeting with and updating the Consortium’s Sponsors group in October 2018, prioritizing tasks by mapping them onto potential release targets, and rescuing early CICE releases (version 1 through 3.14) from a disappearing LANL archive.

54 ENVIRONMENTAL SCIENCES↗