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At least 109 records · Page 6

LANL Meteorological Program: 2020 Data Completeness/Quality Report

Los Alamos National Laboratory (LANL) operates four mesa-top meteorology towers: Technical Area (TA) 06, TA-49, TA-53, and TA-54. An additional tower is located in Mortandad Canyon (TA-5 MDCN), and a rain gauge at North Community (NCOM). A description of the meteorology monitoring network is found in Dewart and Boggs (2014). Mesa-top towers are instrumented at 1.2 meters (m), 11.5 m, 23 m, and 46 m. In addition, TA-06 is instrumented at 92 m. The TA-5 MDCN tower is 10 m in height and is instrumented at 1.2 m and 10 m. Data are collected every 15 minutes. Range checking is done on each measurement every 15 minutes; data that are beyond normal ranges are eliminated from the data set and replaced by a code for missing data. In addition, data are reviewed weekly by meteorologists to identify bad data not identified by range checking. The data steward eliminates these data from the data set and replaces them with a code for missing data. The instrument technicians also review that data and schedule instrument replacement as required. Data completeness is determined by the number of total 15-minute records available versus the total number of possible measurements for the entire year. As a rule, the meteorologists do not attempt to estimate data that are eliminated as bad data. Original datalogger records, containing bad data, can be recalled from program archival storage.

54 ENVIRONMENTAL SCIENCES↗

LANL Meteorological Program: 2022 Data Completeness/Quality Report

Los Alamos National Laboratory (LANL) operates seven mesa-top instrumented meteorology towers: Technical Area (TA) 6, TA-49, TA-53, TA-54, TA-63, TA-54B, and TA-16B. An additional instrumented tower is located in Mortandad Canyon (TA-5 MDCN), and there is a rain gauge at North Community (NCOM), located within the town of Los Alamos. The 10 meter (m) towers at TA-63, TA- 54B, and TA-16B were installed in 2021, and will be included in the 2023 data completeness/quality report. A description of the meteorology monitoring network, prior to the installation of the TA-63, TA-54B, and TA-16B is found in Dewart and Boggs (2014). Four of the mesa-top towers (e.g., TA-6, TA-49, TA-53, and TA-54) are instrumented at the 1.2 m, 11.5 m, 23 m, and 46 m levels. In addition, the TA-6 tower is instrumented at the 92 m level. The TA-5 MDCN tower is 10 m in height and is instrumented at 1.2 m and 10 m. Data are collected and averaged every 15 minutes. Range checking is performed on each measurement every 15 minutes; data that are beyond normal ranges are eliminated from the data set and replaced by a code for missing data. In addition, data are reviewed weekly by qualified meteorologists to identify bad data not identified by the range checking technique. The data steward eliminates these data from the data set and replaces them with a code for missing data. The instrument technicians also review that data and schedule instrument replacement, as required. All instruments are calibrated at a frequency that meets the criteria identified in ANSI/ANS-3.11-2015. Data completeness is determined by the number of total 15-minute records available versus the number of possible measurements for the entire year. As a rule, the meteorologists do not attempt to estimate data that are eliminated as bad data. Original datalogger records, including bad data, can be recalled from program archival storage.

54 ENVIRONMENTAL SCIENCES↗

LANL Meteorological Program: 2023 Data Completeness/Quality Report

Los Alamos National Laboratory (LANL) operates seven mesa-top instrumented meteorology towers: Technical Area (TA) 6, TA-49, TA-53, TA-54, TA-63, TA-54B, and TA-16B. An additional instrumented tower is located in Mortandad Canyon (TA-5 MDCN), and there is a rain gauge at North Community (NCOM), located within the town of Los Alamos. The 10 meter (m) towers at TA-63, TA-54B, and TA-16B have been in testing since they were installed in 2021, and will be included in a future data completeness report. A description of the meteorology monitoring network, prior to the installation of the TA-63, TA-54B, and TA-16B is found in Dewart and Boggs (2014). Four of the mesa-top towers (e.g., TA-6, TA-49, TA-53, and TA-54) are instrumented at the 1.2 m, 11.5 m, 23 m, and 46 m levels. In addition, the TA-6 tower is instrumented at the 92 m level. The TA-5 MDCN tower is 10 m in height and is instrumented at 1.2 m and 10 m. Data are collected and averaged every 15 minutes. Range checking is performed on each measurement every 15 minutes; data that are beyond normal ranges are eliminated from the data set and replaced by a code for missing data. In addition, data are reviewed weekly by qualified meteorologists to identify bad data not identified by the range checking technique. The data steward eliminates these data from the data set and replaces them with a code for missing data. The instrument technicians also review that data and schedule instrument replacement, as required. All instruments are calibrated at a frequency that meets the criteria identified in ANSI/ANS-3.11-2015. Data completeness is determined by the number of total 15-minute records available versus the number of possible measurements for the entire year. As a rule, the meteorologists do not attempt to estimate data that are eliminated as bad data. Original datalogger records, including bad data, can be recalled from program archival storage.

54 ENVIRONMENTAL SCIENCES↗

E3SM simulation results and associated python analysis scripts

This archive contains E3SM Land Model simulation results associated with the Journal of Advances in Modeling Earth Systems (JAMES) article titled "More Realistic Intermediate Depth Dry Firn Densification in the Energy Exascale Earth System Model (E3SM)," by Adam M. Schneider, Charles S. Zender, and Stephen F. Price. Also included in the archive are python scripts used to analyze associated data and an offline, statistical firn model.

54 ENVIRONMENTAL SCIENCES↗

ARM TBS and TigerShark deployment data in 2021

In 2021, observational data collected using ARM platforms, including seven TigerShark UAS flights and 133 tethered balloon system (TBS) flights, were archived by the ARM Data Center and made publicly available to the user community.

54 ENVIRONMENTAL SCIENCES↗

Raw WRF model output files from a LASSO-CACTI simulation

The raw model output from a Weather Research and Forecasting (WRF) simulation from the Large-Eddy Simulation (LES) Atmospheric Radiation Measurement (ARM) Symbiotic Simulation and Observation (LASSO) deep-convection scenario for the Cloud, Aerosol, and Complex Terrain Interactions (CACTI) field campaign. The LASSO-CACTI simulations span grid spacings from 7.5 km to 100 m through the use of four nested domains, labeled d1 through d4. The simulations are of convection near the Sierras de Córdoba mountain range, roughly centered on the ARM Mobile Facility. More information can be found at https://www.arm.gov/capabilities/modeling/lasso. The raw model output is in netCDF format as output by the WRF model, i.e., the “wrfout” files, with the files renamed for archival purposes.

54 ENVIRONMENTAL SCIENCES↗

WRF restart files for a LASSO-CACTI simulation

The restart files from a Weather Research and Forecasting (WRF) simulation from the Large-Eddy Simulation (LES) Atmospheric Radiation Measurement (ARM) Symbiotic Simulation and Observation (LASSO) deep-convection scenario for the Cloud, Aerosol, and Complex Terrain Interactions (CACTI) field campaign. The LASSO-CACTI simulations span grid spacings from 7.5 km to 100 m through the use of four nested domains, labeled d1 through d4. Restarts are available for the LES domains, i.e., d3 and d4. The simulations are of convection near the Sierras de Córdoba mountain range, roughly centered on the ARM Mobile Facility. More information can be found at https://www.arm.gov/capabilities/modeling/lasso. The restart files are output every 30 minutes in netCDF format as output by the WRF model, i.e., the “wrfrst” files, with the files renamed for archival purposes.

54 ENVIRONMENTAL SCIENCES↗

Evaluation of Machine Learning Models for Automated Data Analysis in In-Service Nuclear Power Plant Inspections

The commercial nuclear power industry is facing a potential shortage of certified nondestructive evaluation (NDE) analysts to meet future in-service inspection demands. Automated data analysis (ADA) currently supports human inspectors in tasks such as eddy current evaluations for steam generator examinations. Machine learning (ML) systems are nearing the capability to pass performance demonstration tests for ultrasonic testing (UT) inspections of reactor pressure vessel upper head penetrations in nuclear power plants (NPPs). Current research and development is focused on assisted analysis (AA) of ADA versus fully automated examinations. This presentation will cover assessment of ML flaw detection on dissimilar metal weld (DMW) piping joints.

36 MATERIALS SCIENCE↗

The Third Data Release of the KODIAQ Survey

We present and make publicly available the third data release (DR3) of the Keck Observatory Database of Ionized Absorption toward Quasars (KODIAQ) survey. KODIAQ DR3 consists of a fully reduced sample of 727 quasars at 0.1 < z {sub em} < 6.4 observed with the Echellette Sepctrograph and Imager at moderate resolution (4000 ≤ R ≤ 10,000). DR3 contains 872 spectra available in flux calibrated form, representing a sum total exposure time of ∼2.8 megaseconds. These coadded spectra arise from a total of 2753 individual exposures of quasars taken from the Keck Observatory Archive (KOA) in raw form and uniformly processed using a data reduction package made available through the XIDL distribution. DR3 is publicly available to the community, housed as a higher level science product at the KOA and in the igmspec database.

74 ATOMIC AND MOLECULAR PHYSICS↗

A comparison of carbon impurities in pre- and post-melt uranium Part 1: Scanning electron microscopy analysis

Although C impurities in U have been studied for decades, fundamental questions regarding their incorporation, migration, and overall transformation during metal processing still exist. In two written Parts, we compare the chemical speciation, distribution, crystallography, and morphologies (size, shape, etc.) of carbon-containing impurities in U metal both before and after melting using high resolution analytical electron microscopy (AEM). This first Part demonstrates the variability of carbide inclusions in depleted U (DU) metal with respect to their chemical phases and morphologies as observed by scanning electron microscopy (SEM). Here, a variety of inclusion types, such as the pill-shaped U monocarbide (UC), previously only hypothesized, are summarized. Additionally, delineation between hopper-shaped U carbonitride U(C,N) and dendritic UC inclusions is discussed in relationship to archived literature.

36 MATERIALS SCIENCE↗

Data for "Soil carbon dynamics during drying vs. rewetting: Importance of antecedent moisture conditions"

This dataset contains data used for the paper "Soil carbon dynamics during drying vs. rewetting: importance of antecedent moisture conditions". The Related References field will be updated with a full citation when available.Soil moisture influences soil carbon dynamics, including microbial growth and respiration. The response of such ‘soil respiration’ to moisture changes is generally assumed to be linear and reversible, i.e. to depend only on the current moisture state. Current models thus do not account for antecedent soil moisture conditions when determining soil respiration or the available substrate pool. We conducted a laboratory incubation to determine how the antecedent conditions of drought and flood influenced soil organic matter (SOM) chemistry, bioavailability, and respiration. We sampled soils from an upland coastal forest, Beaver Creek, WA USA, and subjected them to drying and rewetting treatments. For the drying treatment, field moist soils were saturated and then dried to 75, 50, 35, and 5 % saturation. In the rewetting treatment, field moist soils were air-dried and then rewet to 35, 50, 75, and 100 % saturation. We measured respiration and water extractable organic carbon (WEOC) concentrations and used 1H-NMR and FT-ICR-MS to characterize the WEOC pool across the treatments. The drying vs. wetting treatment strongly influenced SOM bioavailability, as rewet soils (with antecedent drought) had greater WEOC concentrations and respiration fluxes compared to the drying soils (with antecedent flood). In addition, air-dry soils had the highest WEOC concentrations, and the NMR-resolved peaks showed a strong contribution of protein groups in these soils. Both NMR and FT-ICR-MS analyses indicated increased contribution of complex aromatic groups/molecules in the rewet soils, compared to the drying soils. We suggest that drying introduced organic matter into the WEOC pool via desorption of aromatic molecules and/or by microbial cell lysis, and this stimulated microbial mineralization rates. Our work indicates that even short-term shifts in antecedent moisture conditions can strongly influence soil C dynamics at the core scale. The predictive uncertainties in current soil models may be reduced by a more accurate representation of soil water and C persistence that includes a mechanistic and quantitative understanding of the impact of antecedent moisture conditions.This dataset contains a compressed (.zip) archive of the data and R scripts used for this manuscript. The dataset includes files in .csv and .txt format, which can be accessed and processed using MS Excel or R. NMR data are provided as raw output data (accessed in Bruker TopSpin or MestreNova) as well as the MestreNova-processed files. This archive can also be accessed on GitHub at https://github.com/kaizadp/hysteresis_and_soil_carbon (DOI: 10.5281/zenodo.4432885).

1H-NMR↗

Summer 2021 Internship Report

The Library Research and Prototyping team (Proto Team) under the research library explores aspects of scholarly communication, covering aspects of infrastructure, interoperability, and persistence. One of the key contributions of the team is the contribution in standardizing and forming the infrastructure for Mementos in web archiving. The Memento framework in web archiving enables access to digital resources in prior versions serving both persistence and the interoperability of the information. During the internship program, I worked on improving the Memento infrastructure by updating the memento validator. The Memento validator provides the functionality of testing the compliance of the web resources to the Memento specification. The application is intended to be used by the community at large such as web archives, researchers, librarians, and general users, with different levels of technical expertise.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Snow ALbedo eVOlution (SALVO) Campaign Qualitative Characterization of Snowpack Stratigraphy from April - June, 2024 in Utqiagivk, AK

The physical structure of the snowpack is impacted by and impacts the exchange of energy with the atmosphere. Qualitative characterization of snowpack stratigraphy in snow pits provides context for what physical processes are changing the snow (e.g., melt, wind-packing, hoar formation). 36 snowpits were dug as part of the 2024 Snow Albedo Evolution (SALVO) field campaign. Snow grain stratigraphy was recorded using standard International Association of Cryospheric Sciences (IACS) snow grain classification ( https://cryosphericsciences.org/publications/snow-classification/) and hand hardness tests (in order of least hard to hardest: F (fist), 4F (four fingers), 1F (one finger), P (pencil), K (knife), I (ice)). These snowpits were generally co-located with library site albedo measurements and are given the same index (Date, Site, Location, Position) when appropriate (see broadband and spectral albedo data archived from the SALVO II project).

Depth to bottom of snow layer↗

Triple oxygen and hydrogen stable isotope composition of hydroxyl water in Orgueil (CI-type) and Tagish Lake (C2-type) carbonaceous chondrites

The primitive carbonaceous chondrites are of interest to cosmochemical science because they contain relatively large amounts of ‘water’ (H 2 O and/or OH – ) within phyllosilicate minerals. This water is evidence for the accretion of ices by their parent planetesimals, and thus represents an archive of the isotopic compositions of H 2 O in the protoplanetary environments. Here, in this study, we used thermogravimetry-enabled laser spectroscopy (TGA-IRIS) analyses of the Orgueil and Tagish Lake meteorites to make δ 2 H, δ 18 O, and Δ′ 17 O measurements of the H 2 O and OH – contained in the different hydrous minerals that comprise each meteorite. In Orgueil, we measured mass-weighted averages of OH – in the saponite and serpentine phyllosilicate matrix to be δ 2 H = 192 ‰, δ 18 O = 1.5 ‰, which are unquestionably of extraterrestrial origin with Δ′ 17 O = 1.0 ‰. For Tagish Lake, analogous values of OH– in the saponite and serpentine phyllosilicate matrix are δ 2 H = 704 ‰, δ 18 O = 11.3 ‰, and are similarly unambiguously extraterrestrial with Δ′ 17 O = 0.82 ‰. We estimate that the parent H 2 O involved in aqueous alteration of Orgueil had δ 18 O value ≥ +23 ‰. In Orgueil, we interpret the phyllosilicate petrographic relationships, and the δ 18 O values of OH – in saponite and serpentine to indicate that saponite formed first, at a lower temperature by 35 to 53 °C than serpentine. This suggests that the Orgueil parent body experienced increasing temperature during the phase of active aqueous alteration (prograde) which set the δ 18 O OH values of the serpentine and saponite. In the case of Tagish Lake, serpentine formed at a lower temperature by 32 to 60 °C than saponite, for the simplest case with constant δ 18 O H2O values. If serpentine formed first, followed by saponite formation at 32 to 60 °C °C higher temperature, this suggests that Tagish Lake sample TL1 underwent prograde aqueous alteration as the parent body heated up. We find evidence that the parent H 2 O for Orgueil, Tagish Lake sample TL1, and Murchison (based on data from a previous study) may have had Δ′ 17 O values of >0.64 ‰.

Aqueous alteration↗

Combining genome-wide association studies and expression quantitative trait nucleotide mapping with molecular and genetic validations to identify transcriptional networks regulating drought tolerance in Populus

Objectives: (i). To deploy a large-scale experimental drought trial for up to 1000 unique genotypes of Populus equipping the sites with controlled irrigation and drought treatments that are fully automated and monitored. FULLY COMPLETED (ii) To test the hypothesis that a suite of traits identified for drought tolerance in P. nigra can be measured in drought and control treatments in the wide germplasm collection of P. trichocarpa. FULLY COMPLETED (iii) To use established and novel GWAS model approaches to identify gene loci linked to drought tolerance traits on interest in P. trichocarpa. FULLY COMPLETED (iv) To undertake comparative analysis of GWAS results for drought tolerance traits in P. nigra and P. trichocarpa. PARTIALLY COMPLETED – remains active (v) Using RNAseq in P. trichocarpa, in droughted and control treatments to identify cis- and trans-regulated eQTN. FULLY COMPLETED (vi) Validate up to 50 cis-QTNs, from network hubs using transient protoplast assays. FULLY COMPLETED (vii) To establish Agrobacterium-based gene editing protocols in Populus. FULLY COMPLETED (viii) To utilize early leads from previous research to investigate at least 6 candidate genes for drought tolerance in Populus. FULLY COMPLETED (ix) To validate up to 20 candidate genes for drought tolerance in P. trichocarpa refined from the long-list tested in the transient assays for cis-acting hub gene targets. PARTIALLY COMPLETED- remains active.

60 APPLIED LIFE SCIENCES↗

Models, data, and scripts associated with “Prediction of Distributed River Sediment Respiration Rates using Community-Generated Data and Machine Learning”

This data package is associated with the publication “Prediction of Distributed River Sediment Respiration Rates using Community-Generated Data and Machine Learning’’ submitted to the Journal of Geophysical Research: Machine Learning and Computation (Scheibe et al. 2024). River sediment respiration observations are expensive and labor intensive to obtain and there is no physical model for predicting this quantity. The Worldwide Hydrobiogeochemisty Observation Network for Dynamic River Systems (WHONDRS) observational data set (Goldman et al.; 2020) is used to train machine learning (ML) models to predict respiration rates at unsampled sites. This repository archives training data, ML models, predictions, and model evaluation results for the purposes of reproducibility of the results in the associated manuscript and community reuse of the ML models trained in this project. One of the key challenges in this work was to find an optimum configuration for machine learning models to work with this feature-rich (i.e. 100+ possible input variables) data set. Here, we used a two-tiered approach to managing the analysis of this complex data set: 1) a stacked ensemble of ML models that can automatically optimize hyperparameters to accelerate the process of model selection and tuning and 2) feature permutation importance to iteratively select the most important features (i.e. inputs) to the ML models. The major elements of this ML workflow are modular, portable, open, and cloud-based, thus making this implementation a potential template for other applications. This data package is associated with the GitHub repository found at Please see the file level metadata (flmd; “sl-archive-whondrs_flmd.csv”) for a list of all files contained in this data package and descriptions for each. Please see the data dictionary (dd; “sl-archive-whondrs_dd.csv”) for a list of all column headers contained within comma separated value (csv) files in this data package and descriptions for each. The GitHub repository is organized into five top-level directories: (1) “input_data” holds the training data for the ML models; (2) “ml_models” holds machine learning models trained on the data in “input_data”; (3) “scripts” contains data preprocessing and postprocessing scripts and intermediate results specific to this data set that bookend the ML workflow; (4) “examples” contains the visualization of the results in this repository including plotting scripts for the manuscript (e.g., model evaluation, FPI results) and scripts for running predictions with the ML models (i.e., reusing the trained ML models); (5) “output_data” holds the overall results of the ML model on that branch. Each trained ML model resides on its own branch in the repository; this means that inputs and outputs can be different branch-to-branch. Furthermore, depending on the number of features used to train the ML models, the preprocessing and postprocessing scripts, and their intermediate results, can also be different branch-to-branch. The “main-*” branches are meant to be starting points (i.e. trunks) for each model branch (i.e. sprouts). Please see the Branch Navigation section in the top-level README.md in the GitHub repository for more details. There is also one hidden directory “.github/workflows”. This hidden directory contains information for how to run the ML workflow as an end-to-end automated GitHub Action but it is not needed for reusing the ML models archived here. Please the top-level README.md in the GitHub repository for more details on the automation.

13C↗

Protein Data Bank: A Comprehensive Review of 3D Structure Holdings and Worldwide Utilization by Researchers, Educators, and Students

The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), funded by the United States National Science Foundation, National Institutes of Health, and Department of Energy, supports structural biologists and Protein Data Bank (PDB) data users around the world. The RCSB PDB, a founding member of the Worldwide Protein Data Bank (wwPDB) partnership, serves as the US data center for the global PDB archive housing experimentally-determined three-dimensional (3D) structure data for biological macromolecules. As the wwPDB-designated Archive Keeper, RCSB PDB is also responsible for the security of PDB data and weekly update of the archive. RCSB PDB serves tens of thousands of data depositors (using macromolecular crystallography, nuclear magnetic resonance spectroscopy, electron microscopy, and micro-electron diffraction) annually working on all permanently inhabited continents. RCSB PDB makes PDB data available from its research-focused web portal at no charge and without usage restrictions to many millions of PDB data consumers around the globe. It also provides educators, students, and the general public with an introduction to the PDB and related training materials through its outreach and education-focused web portal. This review article describes growth of the PDB, examines evolution of experimental methods for structure determination viewed through the lens of the PDB archive, and provides a detailed accounting of PDB archival holdings and their utilization by researchers, educators, and students worldwide.

59 BASIC BIOLOGICAL SCIENCES↗