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User Guide for the Plotting Software for the Los Alamos National Laboratory Nuclear Weapons Analysis Tools Version 2.0

The Los Alamos National Laboratory Plotting Software for the Nuclear Weapons Analysis Tools is a Java™ application based upon the open source library JFreeChart. The software provides a capability for plotting data on graphs with a rich variety of display options while allowing the viewer interaction via graph manipulation and scaling to best view the data. The graph types include XY plots, Date XY plots, Bar plots and Histogram plots.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

SPRUCE Terrestrial Laser Scanning of Experimental Plots, Beginning in 2015

This data set comprises terrestrial laser scanning (TLS) point clouds from the SPRUCE experimental plots located in the S1-Bog of the Marcell Experimental Forest (MEF) near Grand Rapids, Minnesota. In 2015 and 2020 the 12 experimental SPRUCE plots were scanned near peak foliage ("summer”). In 2016-2019 and 2021-2023 the 12 plots were scanned prior to green up ("spring”) and once near peak foliage (Table 1). Additional data will be added through summer 2025. A RIEGL VZ-1000 unit was used to collect all scans. Four TLS scans in each plot were registered to produce a single point cloud per plot using RiSCAN PRO v2.3 software. Up to six additional scans were registered to account for data occlusion when necessary. Point clouds are saved in LAS (*.las) 1.2 format. Point clouds were geo-registered to surveyed plot locations. There are 192 *.las files provided with this dataset.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Microtopography of Experimental Plots Derived from Terrestrial Laser Scans Beginning in 2016

This dataset consists of maps and summaries of very high resolution (1 cm2) spatial data derived from terrestrial laser scans (TLS) characterizing the microtopography (hummocks and hollows) in 12 SPRUCE experimental plots from 2016-2018. The SPRUCE experiment is located in the S1-Bog of the Marcell Experimental Forest (MEF) near Grand Rapids, Minnesota. Additional data will be added through Summer 2021.The TLS sampling plan follows the SPRUCE experimental design, with scanning of the ten enclosed treatment plots with five temperature treatments (0, 2.25, 4.5, 6.75, and 9°C) with and without elevated CO2 (~900 ppm) and the two monitored ambient plots without enclosures. Enclosures are octagonal in shape and are 12.8 m in diameter (114.8 m2 in area), 8 m tall, with a belowground corral that penetrates through the peat to glacial material below, which averages 2.5 m deep across the site. In the spring of each year, four TLS scans were taken per plot/enclosure and registered together to produce a single point cloud for each plot (Figure 2A). Digital surface models (DSMs) were generated from the point clouds and clipped to the inside boundary of the boardwalk in each plot resulting in an approximately 9 x 9 m study area. . All other characterization data types were derived from plot DSMs (elevation), including: slope (Figure 3), concavity (Figure 4), index used for microform classification (Hollow Index) (Figure 6), and microforms (Figure 2C; hummocks and hollows) classified using three methodologies.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Plot-Level Water Table Data Assessments for Absolute Elevations and Height with Respect to Mean Hollows Beginning in 2015

This data set provides a record of the half-hourly automated water table depth data collected for 12 SPRUCE plots (4, 6, 7, 8, 10, 11, 13, 14, 16, 17, 19, 20, and 21) beginning during deep peat heating (DPH) in 2015 and continuing throughout the whole ecosystem warming (WEW) manipulations for the SPRUCE Project (Hanson et al. 2017). The data currently cover 2015-05-12 through 2024-12-31 and will be updated periodically throughout the duration of the SPRUCE project. Also provided are daily plot normalized data for water table depths with respect to mean hollow locations within each plot. The hollow referenced data provide the basis for the intercomparison of peat saturation or aeration across treatment plots. A limited data set for manual water table observations made periodically from 2015-2022 are also provided as a reference to the plot center automated observations. In August 2015, WEW was initiated at 5 warming levels (+0, +2. +4.5, +6.75 and +9 °C) with 2 plots per warming level. DPH measurements were underway before the initiation of WEW heating treatments and both are expected to operate through 2025. Elevated CO2 treatments were added in June 2016 (Enclosures 4, 10, 11, 16 and 19). All measurements were made at the 8.1-ha S1 bog forest site in northern Minnesota, 40 km north of Grand Rapids, in the USDA Forest Service Marcell Experimental Forest (MEF). This dataset contains three data files in comma separated (*.csv) format.

54 ENVIRONMENTAL SCIENCES↗

NGEE Arctic Plant Traits: Vegetation Plot Locations, Ecotypes, and Photos, Kougarok Road Mile Marker 64, Seward Peninsula, Alaska, 2016

This dataset provides field site documentation for related datasets including GPS waypoints for intensive plots, reference points, vegetation plots, and soil temperature/moisture monitoring stations that were established in July 2016 at the Kougarok hill slope located at Kougarok Road, Mile Marker 64. At all intensive plots and reference points, photographs of the surrounding area were also taken using an Olympus Stylus TG-3 digital camera. Photographs were July 2nd through July 7th looking in each of the four cardinal directions. GPS waypoints were taken using a Garmin eTrek 10 handheld GPS and World Geodetic System 1984 (WGS-84). The error associated with the Garmin GPS coordinates was 9 foot or approximately 3 m. When marking waypoints, users waited until the instrument reached this error level before recording. Coordinate units are decimal degrees. This dataset is comprised of one comma-separated (*.csv) file containing GPS waypoints locating intensive plots, reference points, soil temperature/moisture monitoring stations, and vegetation plots. The dataset also contains one folder of photographs (*.jpg) taken at intensive stations, one folder of photographs (*.jpg) taken at reference points, and one User file (*.pdf). The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research. The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska. Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗

Tree damage and mortality measurements across seven ForestGEO plots in the tropics between Oct 2016 and Mar 2023

Annual records (raw data) on tree survival and structural completeness of 36,524 trees (2,467 species) collected across 29 censuses in seven tropical forests distributed across the Neotropics (Amacayacu, Colombia; Barro Colorado Island (BCI), Panamá; Yasuní, Ecuador) and Asia (Fushan, Taiwan; Huai Kha Khaeng (HKK), Thailand; Khao Chong (KC), Thailand; Pasoh, Malaysia). This dataset was used to compare aboveground biomass loss via damage to living trees relative to total AGB loss (mortality + damage). Variable definitions: site: name of the ForestGEO plot stemID.ams: Unique ID for the stem in the annual mortality surveys (ams) treeID.ams: Unique ID for the tree in the ams date.full.census: date of the previous full census of the plot, format: YYYY-MM-DD dbh.full.census: diameter at the breast height (dbh in mm) measured during the previous full census of the plot home: height of measurement of dbh (in m) meanWD: species-level wood density (g cm-3) date.ams: date of the ams, format: YYYY-MM-DD status: survival status of the tree (A: alive; D: dead; NF: not found; "?": unknown) H_considering_damage: living length of the main axis in meters; provides an estimate of the amount of remaining living tissues along the main axis of the stem (e.g., the height of breakage or the height discounting wood decay) b: the remaining proportion of branch volume within the living length (b∈[0,1]). weights.ind: frequency of the [size class x species] bins within the forest plot relative to their frequency in the sample. Necessary to extrapolate estimates to the whole plot.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Hyperspectral Remote Sensing of Vegetation Communities in SPRUCE Experimental Plots, 2016

This dataset consists of reflectance observations from hyperspectral remote sensing of the vegetation communities from the Spruce and Peatland Responses Under Changing Environments (SPRUCE) experimental site within the Marcell Experimental Forest in northern Minnesota, USA. Observations were collected in SPRUCE experimental study plots located in the S1-Bog. Community vegetation plots in ten chambered treatment plots (6, 19, 11, 20, 4, 13, 8, 16, 10, 17) and 3 unchambered ambient plots (7, 14, 21) were scanned. Spectral data were collected on 22 September 2016 (2016-09-22) under clear sky conditions beginning at 1:00 p.m. local time (Central Standard Time). Although it was past peak growing season, senescence had only just begun at the site, and experimentally warmed plots were still near peak growing conditions. Data collection was performed using a PP Systems UniSpec-DC spectroradiometer that detected incoming and reflected solar radiation in 3–4 nm bandwidths between 310 and 1100 nm. The fiber optic cable on the Unispec was fitted with a field of view (FOV) restrictor that limited the FOV to approximately 15°. The instrument foreoptic was leveled at 1 m above the ground capturing an area of approximately 35 cm in diameter, or 0.1 m2. White reference scans were performed between each treatment. Bands at the beginning and end of the spectrum were eliminated due to noise, resulting in a reported data range of 400-1000 nm. These data can help characterize boreal peatland plant composition and species diversity and their responses to elevated temperatures and carbon dioxide concentrations. These observations were used in analyses in McPartland et al (2019). This dataset contains 4 data files in comma-separate values (*.csv) format. Additional metadata are provided: four data dictionaries and a file-level metadata file in comma-separate values (.csv) format and a user guide in PDF (*.pdf) format.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Experimental Plot Top View Aerial Images beginning June 2019

This data set provides a record of the aerial images of the SPRUCE experimental plots obtained periodically using an unmanned aerial vehicle (UAV) with attached camera from 2019-05-05- to 2022-08-25. New images of the plots will be added periodically. The initial RGB images may be used for studies of greenness and snow coverage and compared with ground-based measurements and chamber-based tree and shrub Phenocam images (e.g. Schädel et al., 2022). Also included are NDVI (Normalized Difference Vegetation Index) images showing calculated difference between visible near-infrared (NIR) light reflectance from vegetation, as well as infrared (IR) and multispectral images. Files are presented in JPEG (*.jpg) or PDF (*.pdf) format inside of 28 compressed (*.zip) files. Images were collected for the 10 plots with enclosures, the 7 unchambered plots, and the environmental monitoring instrument cluster area. Images are slightly off-plot center at 12 to 15 meters above ground level or approximately 2 meters above the top of an experimental chamber.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Peat Physical and Chemical Characteristics from Experimental Plot Cores, 2012

This data set reports the results of physical and chemical analyses of peat core samples from the SPRUCE experimental study plots located in the S1-Bog. On August 13-15, 2012, a team of SPRUCE investigators and collaborators collected core samples of peat in the SPRUCE experimental plots. The goal was to characterize the biological, physical, and chemical characteristics of peat, and how those characteristics changed throughout the depth profile of the bog, prior to the initialization of the SPRUCE experimental warming and CO2 treatments. Cores were collected from 16 experimental plots; samples were collected from the hummock and hollow surfaces to depths of 200-300 cm in defined increments. Three replicate cores were collected from both hummock and hollow locations in each plot. The coring locations within each plot were mapped.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Peat Mercury, Methylmercury and Sulfur Concentrations from Experimental Plot Cores, 2012

This data set reports the results of analyses of peat core samples for total mercury and methylmercury, as well as carbon, nitrogen and sulfur. Samples were collected as part of a larger sampling campaign from the SPRUCE experimental study plots located in the S1-Bog. From 2012-08-13 to 2012-10-15, a team of SPRUCE investigators and collaborators collected core samples of peat in the SPRUCE experimental plots. The goal was to characterize the biological, physical, and chemical characteristics of peat, and how those characteristics changed throughout the depth profile of the bog, prior to the initialization of the SPRUCE experimental warming and CO2 treatments. Cores were collected from 16 experimental plots; peat cores were collected from the hummock and hollow surfaces to depths of 300 cm in 10 cm, 25, and 50 cm increments (Pierce et al, 2022). Three replicate cores were collected from both hummock and hollow locations in each plot. The coring locations within each plot were mapped. This dataset contains one file in comma separated (*.csv) format. User Note: The coring descriptions and some reported data are the same as in the related data set, Iverson et al. (2014). Samples for mercury and carbon, nitrogen and sulfur analyses by the University of Minnesota were collected as part of this sampling campaign.

54 ENVIRONMENTAL SCIENCES↗

Numerical computation of Pop plot

The Pop plot — distance-of-run to detonation versus initial shock pressure — is a key characterization of shock initiation in a heterogeneous explosive. Reactive burn models for high explosives (HE) must reproduce the experimental Pop plot to have any chance of accurately predicting shock initiation phenomena. This report describes a methodology for automating the computation of a Pop plot for a specific explosive with a given HE model. Illustrative examples of the computation are shown for PBX 9502 with three burn models (SURF, WSD and Forest Fire) utilizing the xRage code, which is the Eulerian ASC hydrocode at LANL. Comparison of the numerical and experimental Pop plot can be the basis for a validation test or as an aid in calibrating the burn rate of an HE model. Issues with calibration are discussed.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

SPRUCE: LAI Data from SPRUCE Experimental Plots, 2017-2018

This data set provides leaf area index (LAI) data collected across vegetation community plots within the 10 chambered treatment plots (6, 19, 11, 20, 4, 13, 8, 16, 10, 17) and 3 unchambered ambient plots (7, 14, 21) of the SPRUCE experiment project in 2017 and 2018. The vegetation community plots were established in 2014 and designated to be undisturbed and reserved for long-term sampling. LAI measurements were collected using a LICOR-LAI 2200 instrument over a standard 1x2 meter rectangular sampling frame with 50 20x20 cm grid cells. LAI was measured above the canopy and below the vegetation at the surface of the peat (living sphagnum) in the same grid cells each year.

54 ENVIRONMENTAL SCIENCES↗

Examining robustness of model selection with half-normal and LASSO plots for unreplicated factorial designs

When there are constraints on resources, an unreplicated factorial or fractional factorial design can allow efficient exploration of numerous factor and interaction effects. A half-normal plot is a common graphical tool used to compare the relative magnitude of effects and to identify important effects from these experiments when no estimate of error from the experiment is available. An alternative is to use a least absolute shrinkage and selection operation plot to examine the pattern of model selection terms from an experiment. We examine how both the half-normal and least absolute shrinkage and selection operation plots are impacted by the absence of individual observations or an outlier, and the robustness of conclusions obtained from these 2 techniques for identifying important effects from factorial experiments. As a result, the methods are illustrated with 2 examples from the literature.

97 MATHEMATICS AND COMPUTING↗

Litterfall and Branchfall Mass Flux in Malaysia Lambir Hills GEM plots (2008-2010)

This data package includes two folders: Litterfall and Branchfall. The Litterfall folder includes three files: "GEM_Lambir_Hills_Litterfall_Mass_Flux_Data_2008_to_2010.csv" includes the litterfall data, the "GEM_Lambir_Hills_Litterfall_Metadata.xlx" includes the descripion of the columns in the data file, and the PDF file "GEM_Lambir_Hills_Litterfall_Methods_Description" includes a brief description of the litterfall sampling methods. The Branchfall Folder includes four files: the "GEM_Lambir_Hills_Branchfall_Data_2009_to_2010.csv" file includes the branchfall data, the "GEM_Lambir_Hills_Branchfall_Metadata_2009_to_2010.xlsx" includes the description of the columns in the csv data file, the "GEM_Lambir_Hills_Branchfall_Methods_Description.pdf" includes a brief description of the branchfall collection methods, and the "GEM_Lambir_Hills_Branchfall_Data_Metadata_Methods_TransectSums.xlx" includes data, metadata, methods description, and a 'TransectsSums' tab where the reader can find the sum of the branchfall data in each transect Litterfall and Branchfall data were collected to quantify canopy productivity and net primary productivity allocated to branch turnover, which are components of the total net primary productivity and ecosystem carbon budget. The methods follow the Global Ecosystems Monitoring (GEM) protocols (see gem.tropicalforests.ox.ac.uk). The data collection took place from 2008 to 2010 in two 1-ha GEM plots in Lambir Hills National Park, Sarawak, Malaysia, within the Lambir 52-ha ForestGEO plots. One of the plots was located on clay soil and the other on sandy loam. The site is an old-growth moist tropical forest dominated by Dipterocarpacea. The climate is moist tropical and aseasonal. Litterfall was collected biweekly from 25 litter traps per plot. Branchfall was estimated using four 100-m transects, which were surveyed every two months.

54 ENVIRONMENTAL SCIENCES↗

The MELCOR Plot File Format

This work provides a detailed explanation of the MELCOR Plot File format. MELCOR is a fully integrated, engineering-level computer code that models the progression of severe accidents in light water reactor nuclear power plants, and it primarily exports its simulation data to a binary file in the Plot File format. This work documents the Plot File's overall structure and the data types of exported information. The process of interpreting and associating time series information with MELCOR's Plot Variables for complete time histories is also presented. The format and meaning of time-independent information, called Special information, is also discussed.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Implementation of Plot File Testing in the DYNA3D/ParaDyn Software Quality Assurance Suite

Automated testing of DYNA3D/ParaDyn plot files was added to the DYNA3D/ParaDyn software quality assurance (SQA) test suite. The new capability extracts select data from the plot files generated during each verification run and compares it to the same baseline answers used to verify the problem. Deviations between baseline answers and plot file values are reported in the same manner as solution discrepancies, and differences in precision levels between the baseline answers and plot file results are accounted for. The new testing leverages the existing SQA test suite framework and test problems and the Python Mili reader and minimally increases the overall run time (< 5%) of the SQA test suite. This new capability provides incremental end-toend testing of the most common DYNA3D/ParaDyn simulation workflows.

42 ENGINEERING↗

SPRUCE NDVI Data from Selected SPRUCE Experimental Plots, 2016-2018

This dataset consists of observations of Normalized Difference Vegetation Index (NDVI) observations from the Spruce and Peatland Responses Under Changing Environments (SPRUCE) experimental site within the Marcell Experimental Forest in northern Minnesota, USA. Measurements were collected via stationary sensors positioned 1.5 meter above unobstructed areas of the ground layer. Sensors were installed above undisturbed community composition plots, that are not instrumented or destructively sampled in any way, in six of the ten chambered SPRUCE experimental study plots located in the S1-Bog. Spectral data (630 and 800 nanometers) were collected at 10-minute intervals over a field of view of ~53 cm in diameter beginning May 6, 2016. Data collection ended at a different time for each sensor as batteries discharged – ranging from January 1, 2018 to April 1, 2018. The spectral sensors were manufactured by Decagon Inc., (now METER) for observation of ecosystem canopies. Sensors were deployed at the beginning of the 2016 growing season in +0, +4.5, and +9.0 C temperature treatments, with one each in an ambient and elevated carbon dioxide (CO2) plot, for a total of six sensors. These data have been analyzed and reported on in McPartland et al (2018). This dataset contains one data file in comma-separate values (*.csv) format and PDF (*.pdf) file containing plot maps. Additional metadata are provided: a data dictionary and a file-level metadata file in comma-separate values (.csv) format and a user guide in PDF (*.pdf) format.

54 ENVIRONMENTAL SCIENCES↗

SPRUCE Diurnal and Seasonal Patterns of Water Potential in S1 Bog and SPRUCE Experimental Plot Vegetation beginning in 2010

This data set reports on water potential from excised terminal shoots or leaves (Mainthemum only) of vegetation at the SPRUCE site located in the S1 bog. Pretreatment measurements were collected from outside plots within the S1 bog. Post treatments were collected from inside SPRUCE plots. Water potential was measured on the overstory canopy species, consisting of the evergreen Picea mariana (Mill.) B.S.P. (black spruce) and deciduous Larix laricina (Du Roi) K. Koch (tamarack) trees, and ericaceous shrubs < 1 m tall, consisting of the evergreen Rhododendron groenlandicum (Oeder) Kron & Judd (Labrador tea) and Chamaedaphne calyculata (L.) Moench. (leatherleaf). Some measurement campaigns also included the evergreen Kalmia polifolia, Wangenh. (bog laurel), the deciduous Vaccinium angustifolium (Aiton) (blueberry), and the herbaceous Maianthemum trifolium (L.) Sloboda (three-leaf false Solomon’s seal). This dataset contains one data file in comma-separated (*.csv) format. This is the second release of water potential data from the site with additional data from 2018 and 2019. These data cover 2010-06-22 to 2019-07-16. Further results will be added to this data set and released to the public periodically as quality assurance and publication of results are accomplished. There are 10 experimental plots in SPRUCE: five temperature treatments (+0, +2.25, +4.5, +6.75, +9°C) at ambient CO2, and the same five temperature treatments at elevated CO2 (+500 ppm). These data span the pre- and post-treatment periods when enclosed plots were exposed to warming and elevated carbon dioxide (CO2) within the SPRUCE experiment. The pretreatment samples were collected from south end of the S1 bog prior to SPRUCE boardwalk construction, then throughout the bog once the boardwalks were completed.

54 ENVIRONMENTAL SCIENCES↗