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At least 199 records · Page 11

Designing a User Interface for Real-Time Magnetometer Data Acquisition

The Matter-wave Atomic Gradiometer Interferometric Sensor (MAGIS-100) is a next-generation quantum sensor designed to search for ultralight dark matter and explore new frontiers in quantum mechanics. Due to the experiment’s sensitivity to magnetic interference, a magnetometer trolley system was developed to scan magnetic fields along a vacuum tube. Interacting with the system required command-line inputs, creating usability challenges. To improve accessibility and streamline data acquisition, I developed a graphical user interface (GUI) using Python and the customtkinter library. The GUI supports real-time data display, state/mode switching, command execution, and CSV file management. I collaborated with another intern to integrate data visualization features into the GUI, allowing users to generate 3D plots of post-acquisition magnetic field data. In the future, I aim to fix the real-time plotting feature as it results in an unresponsive GUI.

Mendez, Milagros [DuPage Coll.]↗

SPRUCE Vegetation Phenology in Experimental Plots from PhenoCam Imagery, 2015-2024

This data set consists of PhenoCam data from the SPRUCE experiment from the beginning of whole ecosystem warming (Hanson et al. 2017) in August 2015 through March 31 of 2025 (2015-08-24 to 2025-03-31), with start- and end-of-season phenological transition dates derived through the end of autumn 2024. Digital cameras, or phenocams, installed in each SPRUCE enclosure track seasonal variation in vegetation “greenness”, a proxy for vegetation phenology and associated physiological activity. Three separate regions of interest (ROIs) were defined for each camera field of view, corresponding to different vegetation types and demarcating (1) Picea trees (vegetation type EN, for evergreen needleleaf); (2) Larix trees (vegetation type DN, for deciduous needleleaf); and (3) the mixed shrub layer (vegetation type SH). This data set consists of three sets of data files: (1) 3-day summary product files: One file for each camera and each ROI (i.e. vegetation type), characterizing vegetation color at a 3-day time step. • Contains 36 files in *.csv format inside a compressed (*.zip) file. (2) Transition date file: Estimates “greenness rising” (spring) and “greenness falling” (autumn) transition dates derived from the smoothed daily green chromatic coordinate (GCC) values, for each camera and each ROI (i.e., vegetation type). • Contains one file in *.csv format. (3) Snow flag files: Indicate days with snow on trees or snow on ground for each experimental enclosure. • Contains two files in *.csv format, one for snow on trees and one for snow on ground. This data set consists of two sets of companion files: (1) Accompanying HTML files show the 90th quantiles of the mean GCC plotted together with transition dates for each vegetation type and plot. • Contains three files in HTML format, one for each vegetation type. • One additional file in HTML format with the transition dates plotted for each vegetation type, by year. (2) R files for processing PhenoCam files and flags. • Contains five files in R file(*.R) format and the components of the phenocamr package (Version 1.1.4) used for calculating transition dates for 2015-2024. These are contained in a compressed (*.zip) file. User Note: All imagery is posted in near-real time to the PhenoCam Project web page (https://phenocam.nau.edu), where it is publicly available. Scroll to “spruce” in the Gallery or link directly to the 29 SPRUCE cameras at https://tinyurl.com/sprucecams. This data set is based on the complete camera record from SPRUCE and supersedes all previously released PhenoCam datasets (see Related Data Sets). The estimated transition dates for previously released datasets may differ slightly (in most cases, by ±3 days or less), because following standard PhenoCam processing protocols (Richardson et al. 2018, Scientific Data), smoothing and interpolation, outlier removal, and transition date estimation are always conducted using the full data record.

54 ENVIRONMENTAL SCIENCES↗

Experimental Soil Warming Impacts Soil Moisture and Plant Water Stress and Thereby Ecosystem Carbon Dynamics (Blodgett, CA)

This dataset contains data on daily soil temperature, moisture and flux, and soil carbon stock and root biomass across a soil profile down to 100 cm depth at Blodgett Forest Research Station, CA, USA. These data were generated to determine if modeling of an experimental soil warming of 4C showed increased soil CO2 emissions and changes in bulk soil carbon stocks with depth consistent with field observations, as part of the study: Riley et al. (2025) Experimental Soil Warming Impacts Soil Moisture and Plant Water Stress and Thereby Ecosystem Carbon Dynamics in Journal of Advances in Modeling Earth Systems. This research was performed within the framework of the TES Belowground Biogeochemistry SFA project, in particular association with a 1 m-deep experimental soil heating experiment at the University of California Blodgett Forest Research Station, California (120 ° 39′40′′W; 38 ° 54′43′′N). Continuous data were collected at the plot level, and bulk soil carbon and root biomass were sampled once a year from each plot from 0-100 cm, in 10 cm intervals. Measurements relevant to the current study include soil temperature and soil volumetric water content measured continuously at multiple depths in the top meter; fine root biomass and SOC stocks measured from annual soil cores. Soil flux was continuously monitored using a LI-8100 Automated CO2 Flux System in conjunction with the LI-8150 Multiplexer (Licor, Nebraska, USA). Soil flux was determined using SoilFluxPro software, with flux values showing an R² fit of less than 0.9 being excluded from the analysis. Data were collected from each paired plot (1-3): one control (C) and one heated (H).

54 ENVIRONMENTAL SCIENCES↗

High precision control and deep learning-based corn stand counting algorithms for agricultural robot

This paper presents high precision control and deep learning-based corn stand counting algorithms for a low-cost, ultra-compact 3D printed and autonomous field robot for agricultural operations. Currently, plant traits, such as emergence rate, biomass, vigor, and stand counting, are measured manually. This is highly labor-intensive and prone to errors. The robot, termed TerraSentia, is designed to automate the measurement of plant traits for efficient phenotyping as an alternative to manual measurements. In this paper, we formulate a Nonlinear Moving Horizon Estimator that identifies key terrain parameters using onboard robot sensors and a learning-based Nonlinear Model Predictive Control that ensures high precision path tracking in the presence of unknown wheel-terrain interaction. Moreover, we develop a machine vision algorithm designed to enable an ultra-compact ground robot to count corn stands by driving through the fields autonomously. The algorithm leverages a deep network to detect corn plants in images, and a visual tracking model to re-identify detected objects at different time steps. We collected data from 53 corn plots in various fields for corn plants around 14 days after emergence (stage V3 - V4). The robot predictions have agreed well with the ground truth with C robot =1.02×C human -0.86 and a correlation coefficient R=0.96. The mean relative error given by the algorithm is -3.78%, and the standard deviation is 6.76%. These results indicate a first and significant step towards autonomous robot-based real-time phenotyping using low-cost, ultra-compact ground robots for corn and potentially other crops.

97 MATHEMATICS AND COMPUTING↗

$\mathrm{D}$ark$\mathrm{F}$lux: A new tool to analyze indirect-detection spectra of next-generation dark matter models

Here we present DarkFlux, a software tool designed to analyze indirect-detection signatures for next-generation models of dark matter (DM) with multiple annihilation channels. Version 1.0 of this tool accepts user-generated models with 2→2 tree-level dark matter annihilation to pairs of Standard Model (SM) particles and analyzes DM annihilation to γ rays. The tool consists of three modules, which can be run in a loop in order to scan over DM mass if desired: The annihilation fraction module calls an internal installation of MadDM, a dark matter phenomenology plugin for the Monte Carlo event generator MadGraph5 _ aMC@NLO, to compute the thermally averaged cross section $\langle σv\rangle_i$ for each annihilation channel $χχ$ ($\bar{χ}$,$χ^†$)→ i $\∈{SM, SM}. . The module then computes the fractional annihilation rate (annihilation fraction) into each channel. The flux module combines the flux spectrum from each annihilation channel, weighted by the appropriate annihilation fractions, to compute the total flux at Earth due to DM annihilation. In DarkFlux v1.0, this module specifically computes the γ-ray flux for each channel using the publicly available PPPC4DMID tables. The analysis module compares the total flux to observational data and computes the upper limit at 95% confidence level (CL) on the total thermally averaged DM annihilation cross section. In DarkFlux v1.0, this module compares the total γ-ray flux to a joint-likelihood analysis of fifteen dwarf spheroidal galaxies (dSphs) analyzed by the Fermi-LAT collaboration. DarkFlux v1.0 automatically provides data tables and can plot the output of these three modules. In this manual, we briefly motivate this indirect-detection computer tool and review the essential DM physics. We then describe the several modules of DarkFlux in greater detail. Finally, we show how to install and run DarkFlux and provide two worked examples demonstrating its capabilities.

79 ASTRONOMY AND ASTROPHYSICS↗

BinaRena: a dedicated interactive platform for human-guided exploration and binning of metagenomes

Background: Exploring metagenomic contigs and “binning” them into metagenome-assembled genomes (MAGs) are essential for the delineation of functional and evolutionary guilds within microbial communities. Despite the advances in automated binning algorithms, their capabilities in recovering MAGs with accuracy and biological relevance are so far limited. Researchers often find that human involvement is necessary to achieve representative binning results. This manual process however is expertise demanding and labor intensive, and it deserves to be supported by software infrastructure. Results: We present BinaRena, a comprehensive and versatile graphic interface dedicated to aiding human operators to explore metagenome assemblies via customizable visualization and to associate contigs with bins. Contigs are rendered as an interactive scatter plot based on various data types, including sequence metrics, coverage profiles, taxonomic assignments, and functional annotations. Various contig-level operations are permitted, such as selection, masking, highlighting, focusing, and searching. Binning plans can be conveniently edited, inspected, and compared visually or using metrics including silhouette coefficient and adjusted Rand index. Completeness and contamination of user-selected contigs can be calculated in real time. In demonstration of BinaRena’s usability, we show that it facilitated biological pattern discovery, hypothesis generation, and bin refinement in a complex tropical peatland metagenome. It enabled isolation of pathogenic genomes within closely related populations from the gut microbiota of diarrheal human subjects. It significantly improved overall binning quality after curating results of automated binners using a simulated marine dataset. Conclusions: BinaRena is an installation-free, dependency-free, client-end web application that operates directly in any modern web browser, facilitating ease of deployment and accessibility for researchers of all skill levels. The program is hosted at https://github.com/qiyunlab/binarena, together with documentation, tutorials, example data, and a live demo. It effectively supports human researchers in intuitive interpretation and fine tuning of metagenomic data.

59 BASIC BIOLOGICAL SCIENCES↗

Shock Initiation of PBX 9502: Material Lots 006 and 007 heated to 76 Celsius

Two shock initiation experiments have been carried out on PBX 9502 material Lots 006 and 007 heated to 76 Celsius. The purpose of these shots is to assess the reactant equation of state and shock-todetonation transition behavior relative to previously characterized lots of heated PBX 9502. PBX 9502 consists of 95% tri-amino-tri-nitro-benzene (TATB) and 5% Kel-F 800 (a copolymer derived from the monomers chlorotrifluorethylene (CTFE) and vinylidine fluoride) by weight. The experiments carried out at the TA-40 Chamber 9 gas gun facility were subject to shock pressures of 12.01 and 11.44 GPa for shots 2s-1129 and 2s-1130 respectively. These pressures resulted in run-to-detonation transitions of 7.91 and 8.73 mm from the impact plane. Unfortunately, due to a series of problems with the heating system the Lot 007 shot was subject to temperature cycling twice before the experiment was fired. The results do not indicate that this had any effect on the sensitivity of the explosive. In terms of shock sensitivity the Lot 006 and 007 PBX 9502 was found to be much less sensitive than the recycled lot 004 when heated to 76 Celsius. The data actually lies closer to the suit of ambient data on the Pop Plot.

36 MATERIALS SCIENCE↗

A numerical evaluation of the ambient air temperature in the Electron-Ion Collider tunnel

The Electron-Ion Collider (EIC) is a next-generation collider-accelerator that may require consistent operating temperature conditions for the beams within the accelerator tunnels to maintain stable operation. Variations in ambient temperature within the tunnel can cause thermal expansion of beampipe and component supports and can negatively affect the tunnel equipment, impacting the stability of the beamline. Modifications will be made to the Relativistic Heavy Ion Collider (RHIC) at Brookhaven National Laboratory (BNL) to create the EIC, which necessitates a temperature model that addresses these modifications. To approach this problem, the consistency of temperature changes in different tunnel sections was first evaluated by plotting RHIC tunnel temperature data at various times of the day and year. From this data, a tunnel section was selected and a 2D temperature model was created for RHIC, EIC, and EIC with added cooling configurations. Soil temperature data was analyzed to determine the maximum, average, and mode soil temperatures, which were used as boundary conditions in different temperature scenarios. Computational fluid dynamics modeling was used to create 2D temperature profiles for the configurations. From this model, the predicted temperatures indicate that further analysis is required to validate the boundary conditions and benchmark the current conditions to allow the prediction of the tunnel ambient conditions at EIC. This research can be used as a preliminary model to create an EIC tunnel cooling system that will increase the operational stability of the EIC. As a result of my work this summer, I have become familiar with computational fluid dynamics, including creating fluid dynamic simulations using ANSYS Fluent and related software. I have also learned about the project process required for planning large-scale engineering projects.

43 PARTICLE ACCELERATORS↗

Well-Log Derived Geomechanical Analysis of Microseismicity in the Mt. Simon Saline Aquifers (Illinois Basin - Decatur Project)

The Illinois Basin Decatur Project (IBDP) successfully demonstrated the safe geologic storage of carbon dioxide at a commercial scale. Within the IBDP project three deep wells (injection (CCS1), monitoring (VW1), geophysical (GM1)) were competed and geophysical logs were recorded. During injection and post-injection periods microseismic monitoring was conducted to create a miscoseismic catalog. The correlations between microseimic attributes and geomechanical well logs define major geomechanical drivers of microseismic expression to understand a reservoir response to CO2 injection in geological context. Utilizing standard sonic and density well logs, the dynamic elastic moduli were calculated and employed to correlate with microseismic pseudo-logs. A multi-dimensional Mu-rho and Lambda-rho (MRLR) hyperdimensional plots display of meaningful data and uncovered subtle relationships between elastic properties of sandstones and the seismological attributes of recorded microseismicity.

Myshakin, Evgeniy↗

Measurements of the 238 U/ 235 U and 239 Pu/ 235 U Fission Cross-Section Ratios Using Monoenergetic Neutron Beams

A quasi-monoenergetic neutron beam was used to measure the neutron-induced fission cross-section ratios for 238 U(n,f)/ 235 U(n,f) (Table 1) and 239 Pu(n,f)/ 235 U(n,f) (Table 2). These results are plotted in comparison with data from the fissionTPC and ENDF/B-VIII.0 in Figs.1-3. For each cross section ratio, the total, systematic, and statistical uncertainties are listed, along with the total beamtime required.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

NGEE Arctic Soil Micro-warming Experiment Temperature Profiles, Council Road Mile Marker 71, Seward Peninsula, Alaska, 2017-2019

The reported soil temperature profile measurements (24 locations - 2 probes with 5 and 6 thermistors, respectively - Fig. 1 and Fig. 2) were initiated as part of a soil micro-warming experiment at the Council Road Mile Marker 71 Site (CN_MM71) in September 2017. From 2017 through August 2019, these were measurements of ambient pre-treatment plot conditions. This tussock tundra site (with underlying permafrost) experiences annual frost heaving that causes a vertical movement of the ground surface, hence causing some of the upper most temperature thermistors to be at surface level or above ground and recorded therefore air temperatures near the surface and not below ground soil temperature (see section on Quality Assurance). After August 2019, these measurements ended in preparation for transitioning to the experimental warming of individual plots. The reported temperature data are nominally 3-hour averages of measurements made at varying frequencies (3-hour maximum) with frequencies that depended upon power (solar) availability to operate the sensors (see section in documentation on Methods). The number of values and the standard deviation for each 3-hour average (where appropriate) are also provided. These measurements are located near the NGEE-Arctic CO2 and CH4 eddy covariance tower at the Council Road Site (US-NGC: NGEE Arctic Council, https://ameriflux.lbl.gov/sites/siteinfo/US-NGC#overview) and auxiliary data at https://doi.org/10.5440/1526749. This dataset contains four *.csv files and one *.pdf file. 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↗

Legacy Analysis of Dark Matter Annihilation from the Milky Way Dwarf Spheroidal Galaxies with 14 Years of Fermi-LAT Data: Data Products

https://arxiv.org/abs/2311.04982This repository contains data products from the 14 year Fermi-LAT analysis of the Milky Way dSphs as described in McDaniel et al (2023) https://arxiv.org/abs/2311.04982. The included data products are the SED fits files and 2D TS profiles in the WIMP mass and cross section space. These are available for dSphs as well as the blank-field analysis, using both the standard likelihood and the weighted likelihood approach (see Appendix A). CSV data files are included containing relevant information about the dSphs (see table 1 of McDaniel+2024) and blank fields (RA & Dec). Also included is a python Jupyter Notebook to show basic usage of the data products. For Example, plotting the SED likelihoods, converting the SED likelihood to DM space, creating a combined TS profile, obtaining upper limits, etc. This is also stored as a static html file for easier viewing. SEDs are stored as fits files in the output format of fermipy (see https://fermipy.readthedocs.io/en/latest/advanced/sed.html) TS profiles are stored as numpy arrays covering 40 logarithmically spaced mass values over the 1 GeV - 1 TeV mass range and 60 logarithmically spaced cross-section values covering the $10^{-28}$ to $10^{-22}$ cm$^3$/s cross section range. TS profiles including the J-factor prior and without are available, and are labeled with "Jprior" or "noprior" respectively.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Uncertainty Visualization for Renewable Energy Potential

In this paper, we present the reV (Renewable Energy Potential) Dashboard, an interactive browser-based tool for uncertainty visualization and data exploration built using customized plotly dash components. With continuing development and utilization of computational models to study the power sector there is an increasing need for data-driven visualization tools which allow scientists, researchers, and engineers to interact with their data in real-time. Our principle motivation for developing this interactive uncertainty visualization was to provide domain scientists and modelers a platform which allows them to better understand and communicate scientific findings stemming from intricate information encoded in their data that is otherwise difficult to capture by conventional analysis. The development of customized dashboard components using the React programming paradigm, combined with fully pre-processed data, allows for users to select a variety of data options to update and manipulate the visualization in a straightforward computationally efficient manner.

dashboard↗

Root responses to warming and hurricane disturbances in a wet tropical forest of Puerto Rico: R code and data

The purpose of this data was to generate a scientific article that describes the responses of tropical roots to a warming experiment and to the effect of two consecutive hurricanes in Puerto Rico (Yaffar et al. in review). This data is from 10 months of minirhizotron images taken every 2 weeks at the experimental warming Tropical Responses to Altered Climate Experiment (TRACE) plots in Puerto Rico before and after Hurricanes Irma and Maria. This project has 3 warmed plots (plot 2,4,6) and 3 control plots (plot 1,3,5) with 2 minirhizotron tubes at each plot. As part of the data, there is also root data taken from cores and in-growth cores. Additionally, there is soil nutrient concentration data, soil microclimate, total leaf area, and canopy openness taken by Reed et al. 2020, and the TRACE census. Data files are in CSV format and the R code included in this package can be used with R 3.4.4 (R Core Team and contributors worldwide).

54 ENVIRONMENTAL SCIENCES↗

VERAView User's Manual

VERAView has been developed as an interactive graphical interface for the visualization and engineering analyses of output data from VERA. The Python-based software is easy to install, intuitive to use, and provides instantaneous 2D and 3D images, 1D plots, and alpha-numeric data from VERA multi-physics simulations. This document provides a brief overview of the software and some description of the major features of the application, including examples of each of the encapsulated “widgets” that have been implemented thus far. VERAView is still under major development and large changes in the software and this document are still anticipated.

97 MATHEMATICS AND COMPUTING↗

Measurement of Convective Heat Transfer Coefficients With Supercritical CO 2 Using the Wilson-Plot Technique

This paper describes the measurement of convective heat transfer coefficients and friction factors for sCO 2 flowing in a smooth tube and compares the results with published correlations for validation. The paper also describes the Heat Exchange and Experimental Testing (HEET) rig recently designed and built at the U.S. Department of Energy’s (DoE’s) National Energy Technology Laboratory (NETL) in Morgantown, WV. Here, the Wilson-plot technique used for measuring the heat transfer coefficients is described along with the data reduction process. The Wilson-plot technique was chosen as the basis for the design of NETL’s HEET rig. Advantages of the Wilson-plot technique include the (1) ability to measure high convective heat transfer coefficients accurately, (2) ability to measure average heat transfer coefficient for complicated heat exchange geometries like those produced using additive manufacturing, (3) ability to measure heat transfer coefficients on both sides of a heat exchanger independently, and (4) simplicity of experimental setup. Capabilities of the HEET rig include pressure to 24 MPa (3500 psig), temperature to 538 °C (1000 °F), mass flow rate to 1.5 kg/s (3 lb/s), and Re to 500,000. The rig is designed to operate with pure CO 2 or a mixture of CO 2 and up to 10% N2 by volume to study the impact of gas mixtures typical of direct-fired sCO 2 power cycles on the convective heat transfer and pressure drop. Preliminary tests in the HEET rig were performed with smooth stainless-steel tube and pure CO 2 , and the results were compared with published correlations for Nusselt number (Nu) and friction factor. Over a Reynolds number (Re) range from 58,000 to 228,000, measured Nu was compared to predictions using the Dittus and Boelter equation (Kreith and Bohn, 1993, “Principles of Heat Transfer, West Publishing Company”) within 5% and measured friction factors were compared to predictions using the McAdams correlation (“McAdams, 1954, “Heat Transmission,” 3rd ed., McGraw Hill, New York)” for smooth tube to be within 5%.

42 ENGINEERING↗

MODE: A Web Application for Interactive Visualization and Exploration of Omics Data

Studies generating transcriptomics, proteomics, lipidomics, and metabolomics (colloquially referred to as “omics”) data allow researchers to find biomarkers or molecular targets, or understand complex biological structures and functions by identifying changes in biomolecule abundance and expression between experimental conditions. Omics data is multi-dimensional and oftentimes summarization techniques such as principal component analysis (PCA) are used to identify high-level patterns in data. Though useful, these summaries don’t allow exploration of detailed patterns in omics data that may have biological relevance. The use of interactive HTML displays with plots allows researchers to interact with omics data at a detailed level, but building these displays requires significant coding expertise. To overcome this barrier, the software MODE was built to empower users to build their own interactive HTML displays to support scientific discovery. These displays are easily shareable, do not depend on a specific operating system, and allow users to effortlessly sort and filter plots by categorical or numerical variables. MODE allows users to build and share these displays with several options for plot design and meta selection. In conclusion, the MODE web application and its capabilities are presented and then demonstrated on lipidomics data from a leaf wounding study.

lipidomics↗

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↗