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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↗

Summer 2021 Internship Report

The internship was a 12 week program which started on 7th of June 2021. During this internship program, I worked as a Research Intern on a project which focused on feature extraction from scientific PDF documents using open-source, machine-learning-based tools.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Involving the new generations in particle physics endeavours

Since 1984 INFN and University of Pisa scientists performing experiments at Fermilab have been running a two-month summer training program for Italian students at the lab. In 1984 the program involved only a few physics students from the University of Pisa, but it was later extended to other INFN groups and to engineering students. Since 2004 the program has been supported in part by the US Department of Energy (DOE) in the frame of an exchange agreement with INFN and has been run by the Cultural Association of Italians at Fermilab (CAIF). In 2007 the Sant’Anna School of Advanced Studies (Pisa) established an agreement with Fermilab to share the cost of four engineering students each year. In the almost 40 years of its history, the program has hosted at Fermilab approximately 550 Italian students from more than 20 Italian universities and from some non-Italian universities. In addition, in the years 2010-2019, with the support of the Italian National Institute of Astrophyics (INAF), the Italian Space Agency (ASI), and CAIF, 30 students were hosted in other US laboratories and universities. The Fermilab training programs spanned from data analysis to design and construction of particle detectors and accelerator components, R/D on superconductive elements, theory of accelerators, and analysis of astrophysical data. At the other US laboratories the offered training was on Space Science. In 2015 the University of Pisa endorsed the program as one of its own Summer Schools. The interns are enrolled as Pisa students for the duration of the internship. They are required to write summary reports published in the Fermilab and University of Pisa web pages. Upon positive evaluation by a University board, students are acknowledged 6 ECTS credits. The entire program is expected to expand further under CAIF management. An agreement has been signed between ASI and CAIF, for ASI to support yearly three two-months fellowships in US space science. In the following we inform on student recruiting, training programs, and final evaluation

Barzi, E.↗

CRCNS21 Computational Models of Multisensory Integration by Upper Limb in Humanoids and Amputees

This international collaborative research project between Johns Hopkins University (JHU) and the Technical University of Munich (TUM) investigated how the human brain processes and integrates multiple types of sensory information, such as touch and force, with the goal of improving prosthetic limbs for amputees and advancing sensory capabilities in humanoid robots. The research advanced our understanding of how the brain responds to sensory feedback in upper-limb amputees. Through experiments in which amputees received electrical stimulation while performing phantom hand movements, we demonstrated that sensory feedback activates the cortical sensorimotor and multisensory regions, and that these regions communicate dynamically during stimulation. Experiments with intact-limb participants explored the integration of visual, haptic, and force feedback, as well as in virtual reality motor training, further showing how the brain processes multimodal sensory information. In addition, this research inspired work on examining the reliability of where amputees perceive sensations over time, which contributed to a successful doctoral fellowship for continued investigation. Our collaborators at TUM improved multimodal sensor technology combining tactile and thermal feedback for humanoid robots, demonstrating the feasibility of integrating multiple sensor types into a unified system for detecting and responding to environmental stimuli. The experimental methods and analysis techniques developed across both teams, including functional network analysis and multimodal sensor integration, provide a foundation for future research in prosthetics and robotics. This research benefits the public by generating knowledge about how amputees process restored sensory information. Advances in humanoid sensing contribute to safer human-robot interaction. The project also fostered international collaboration and cross-disciplinary training: one TUM doctoral student spent a summer at JHU working on multimodal sensor integration, while two JHU students traveled to TUM to host workshops on neuromorphic sensory encoding and sensory integration.

42 ENGINEERING↗

Los Alamos National Laboratory R&D Intern

This report details the responsibilities, outcomes, and project details of a summer R&D internship at Los Alamos National Laboratory (LANL). LANL is a multidisciplinary laboratory that focuses on current cutting-edge research in many fields such as national security, engineering, materials science, computational modeling, and advanced manufacturing. The goal of the internship project was to work with lab engineers and resources to develop an energy absorbing structure for high-velocity impact applications. The successful development of this technology and methodology would not only positively impact future project funding but also contribute to the laboratory's commitment to solve national security challenges through simultaneous excellence. Such devices would also support efforts surrounding the research and development of energy absorbing structures and would provide new vital information backed by experimentation. Different computational and modeling methods were used to design these structures, in addition to qualitative background information provided by past literature. The resultant designs were successfully tested, and the test results were successfully quantified. From these results, new computational methods were developed through python programming and modeling to predict ideal materialistic properties for these structures given a sufficiently defined application.

36 MATERIALS SCIENCE↗

A critical review of operational strategies for the management of harmful algal blooms (HABs) in inland reservoirs

Occurrences of freshwater harmful algal blooms (HABs) are increasing on a global scale, largely in part due to increased nutrient input and changing climate patterns. While reservoir management strategies that can influence phytoplankton are known, there is no published guideline or protocol for the management of harmful algal blooms. There is a need to establish what factors are the predominant drivers of blooms, and how common reservoir management strategies specifically influence each factor. The following literature review seeks to establish the benefits and drawbacks of operational management strategies that currently exist. The main focus is altering hydrodynamic conditions (hypolimnetic withdrawals, surface flushing, pulsed inflow, artificial mixing), in order to induce environmental changes within the reservoir itself. Since excess nutrients are one of the biggest contributors to worsening bloom conditions, internal nutrient dynamics and reduction are also discussed. Additionally, we review the predominant seasonal factors (stratification, light, temperature, and wind) that affect likelihood of bloom occurrence and duration. In conclusion, the ultimate objective of this review is to increase understanding of the relationships between HAB drivers and reservoir operations in order to inform the development of data, modeling, and management strategies for the prevention and mitigation of blooms.

54 ENVIRONMENTAL SCIENCES↗

Consistent Timing of Arctic Permafrost Loss Across the CESM1 Large Ensemble

Abstract The Arctic is especially vulnerable to climate change and is warming faster than the global average. Changes in this region pose a heightened threat due to the immense amount of carbon frozen as organic material in the soil. When permafrost thaws, organic material decays and releases as greenhouse gases into the atmosphere, contributing to further warming. A better understanding of the processes that influence permafrost degradation is needed to inform climate adaptation and mitigation planning. This study assesses changes to Arctic permafrost across 35 ensemble member simulations from the Community Earth System Model 1 Large Ensemble Project, under the Representative Concentration Pathway 8.5 21st century scenario. Most Arctic near‐surface permafrost is lost by 2100, but timing varies across regions and with soil depth. Internal climate variability, represented by differences between ensemble members, has a constrained influence on degradation timing due to relative consistency of summer temperature increases and insulation by winter snow cover.

54 ENVIRONMENTAL SCIENCES↗

Ground surface temperature derived Snow Cover Properties, Seward Peninsula, Alaska, 2019-2023

Snow-ground interface temperatures have been collected at the Teller mile marker 27 and Kougarok mile marker 64 field sites on the Seward Peninsula, Alaska from 2019 through 2023 (with data missing from Fall 2020 through Summer 2021 due to COVID). Temperatures were measured using iButton Link DS1921G-F5# Thermochron miniature temperature sensors and Tinytag TGP-4017 internal sensors deployed across the Kougarok 64 and Teller 27 field sites. These sensors are a cost-efficient way to collect snow-ground interface temperatures at a high spatial resolution, and when paired with air temperature data these measurements can provide insight into fine-scale variability in snowpack characteristics across the study sites. From this data, snow process metrics were calculated at each sensor location based on the methods outlined in Staub and Delaloye, 2017. Metrics are calculated daily for each sensor as well as over the entire season. These metrics include ground surface temperature (°C), the number of days under snow cover (number of days), the insulation effect of snow (unitless), the length of the transitional snow periods (number of days), as well as intermediaries such as temperature variability. Calculating these snow processes relies on the assumption that when snow covers a temperature sensor, it is buffered from diurnal fluctuations in air temperature by the insulating snow layer. More information on the calculated metrics can be found in the User Guide of this dataset, as well as in Staub and Delaloye’s 2017 publication Using Near-Surface Ground Temperature Data to Derive Snow Insulation and Melt Indices for Mountain Permafrost Applications. This dataset includes one daily and one seasonal *.csv file of metrics for every year of data, a daily and a seasonal *.csv data dictionary, and one User Guide document (*.pdf) describing data collection and processing.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↗

Field intercomparison of ice nucleation measurements: the Fifth International Workshop on Ice Nucleation Phase 3 (FIN-03)

Abstract. The third phase of the Fifth International Ice Nucleation Workshop (FIN-03) was conducted at the Storm Peak Laboratory in Steamboat Springs, Colorado, in September 2015 to facilitate the intercomparison of instruments measuring ice-nucleating particles (INPs) in the field. Instruments included two online and four offline measurement systems for INPs, which are a subset of those utilized in the laboratory study that comprised the second phase of FIN (FIN-02). The composition of the total aerosols was characterized using the Particle Analysis by Laser Mass Spectrometry (PALMS) and Wideband Integrated Bioaerosol Sensor (WIBS) instruments, and aerosol size distributions were measured by a laser aerosol spectrometer (LAS). The dominant total particle compositions present during FIN-03 were composed of sulfates, organic compounds, and nitrates, as well as particles derived from biomass burning. Mineral-dust-containing particles were ubiquitous throughout and represented 67 % of supermicron particles. Total WIBS fluorescing particle concentrations for particles with diameters of > 0.5 µm were 0.04 ± 0.02 cm−3 (0.1 cm−3 highest; 0.02 cm−3 lowest), typical of the warm season in this region and representing ≈ 9 % of all particles in this size range as a campaign average. The primary focus of FIN-03 was the measurement of INP concentrations via immersion freezing at temperatures > −33 °C. Additionally, some measurements were made in the deposition nucleation regime at these same temperatures, representing one of the first efforts to include both mechanisms within a field campaign. INP concentrations via immersion freezing agreed within factors ranging from nearly 1 to 5 times on average between matched (time and temperature) measurements, and disagreements only rarely exceeded 1 order of magnitude for sampling times coordinated to within 3 h. Comparisons were restricted to temperatures lower than −15 °C due to the limits of detection related to sample volumes and very low INP concentrations. Outliers of up to 2 orders of magnitude occurred between −25 and −18 °C; a better agreement was seen at higher and lower temperatures. Although the 5–10 factor agreement of INP measurements found in FIN-03 aligned with the results of the FIN-02 laboratory comparison phase, giving confidence in progress of this measurement field, this level of agreement still equates to temperature uncertainties of 3.5 to 5 °C that may not be sufficient for numerical cloud modeling applications that utilize INP information. INP activity in the immersion-freezing mode was generally found to be an order of magnitude or more, making it more efficient than in the deposition regime at 95 %–99 % water relative humidity, although this limited data set should be augmented in future efforts. To contextualize the study results, an assessment was made of the composition of INPs during the late-summer to early-fall period of this study inferred through comparison to existing ice nucleation parameterizations and through measurement of the influence of thermal and organic carbon digestion treatments on immersion-freezing ice nucleation activity. Consistent with other studies in continental regions, biological INPs dominated at temperatures of > −20 °C and sometimes colder, while arable dust-like or other organic-influenced INPs were inferred to dominate below −20 °C.

54 ENVIRONMENTAL SCIENCES↗

WHONDRS River Corridor Sediment and Water Geochemistry and In Situ Sensor Data from Machine-Learning-Informed Sites across the Contiguous United States (v6)

This dataset supports a broader study examining hyporheic zone respiration rates to improve predictive models at a contiguous United States (CONUS) scale. The CONUS-Scale Model-Sample Study (CM) was designed following ICON (integrated, coordinated, open, and networked) principles to facilitate a model-experiment (ModEx) iteration approach, leveraging crowdsourced sampling across the CONUS. New machine learning models were created every month to guide sampling locations. Data from the resulting samples were used to test and rebuild the machine learning models for the next round of sampling guidance. Sampling began in April 2022 and ended in October 2023. In addition to the widely distributed CONUS sites, a more spatially focused sampling occurred in the Yakima River Basin, WA in summer 2022. Data from this more spatially intensive sampling occurred under the label “Second Spatial Study (SSS)” and were also included in the machine learning models. Other data types collected from SSS that were not part of CM were published in a separate data package (https://data.ess-dive.lbl.gov/view/doi:10.15485/1969566). This data package was originally published in February 2023. It was updated in June 2023 (v2; new and modified files); December 2023 (v3; new and modified files); June 2024 (v4; new and modified files); April 2024 (v5; new and modified files); and September 2025 (v6; modified files). See the change history section in the readme for more details. For details on how to navigate data packages generated by this project, see https://data.ess-dive.lbl.gov/portals/PNNLRiverCorridorSFA/About. This dataset is comprised of two folders of field photos and videos, one folder of raw Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) data and one main data folder containing (1) file-level metadata; (2) data dictionary; (3) field metadata; (4) readme; (5) international generic sample number (IGSN) mapping file; (6) field protocols; (7) a subfolder with sample data; and (8) a subfolder with sensor data. The sample data subfolder contains (1) surface water and sediment dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC) data and averages; (2) surface water and sediment total nitrogen data and averages; (3) surface water major cations and anions and averages; (4) sediment grain size data; (5) sediment iron (II) data and averages; (6) wet sediment mass, dry sediment mass, water mass, and wet sediment volume in incubation and sediment ICR vials; (7) sediment incubation respiration rate data and averages; (8) normalized respiration rate data and averages; (9) methods codes; (10) sediment specific surface area; (11) sediment percent carbon and nitrogen; (12) sediment gravimetric moisture and averages; (15) sediment X-ray diffraction (XRD) data; (16) sediment adenosine triphosphate (ATP) and averages; (17) a subfolder with sediment incubation respiration data, scripts, and plots; (18) surface water and sediment FTICR methods; and (19) a subfolder of 9.4 Tesla (9.4T) FTICR-MS data. This folder contains five subfolders, one containing the sediment .xml data files, one containing the water .xml files, one containing the sediment CoreMS output files, one containing the water CoreMS output files, and the other containing instructions and scripts for processing the files in CoreMS (https://github.com/EMSL-Computing/CoreMS).The sensor data subfolder contains (1) a subfolder with miniDOT dissolved oxygen and temperature data and plots; (2) miniDOT dissolved oxygen and temperature summary data; and (3) miniDOT installation methods. All files are .csv, .pdf, .R, .xml, .d, .html, .Rmd, .py, .cal, .json, .jpg, .jpeg, .png, .mov, or .mp4. CORRECTION: Carbon and nitrogen content are reported as percentages. The current column headers "01395_C_percent_per_mg" and "01397_N_percent_per_mg" are incorrect. These should read "01395_C_percent" and "01397_N_percent" and will be corrected in the next version of this data package. We thank the United States Forest Service, Washington Department of Fish and Wildlife, Washington Department of Natural Resources, Cowiche Canyon Conservatory, Washington State Parks and Recreation Commission (Scientific Research Permit #210901), and the Confederated Tribes and Bands of the Yakama Nation for access to field locations where the samples labeled “SSS” were collected. We also thank the Yakama Nation Tribal Council and Yakama Nation Fisheries for working with us to facilitate sample collection and optimization of data usage according to their values and worldview. WHONDRS consortium members were asked to provide any acknowledgments for the collection of samples labeled “CM” and the following is a list of acknowledgments that were submitted with their corresponding Site IDs: (MART) Research activities were conducted in part on the Wind River Experimental Forest within the Gifford Pinchot National Forest; (MP- 100379) Philadelphia is part of Lenapehoking, the ancestral homelands of the Lenape peoples; (MP-102398) Land surveyed is the ancestral homelands of the Nookhose'iinenno (Arapaho), Tsis tsis'tas (Cheyenne), and Nuuchu (Ute); (MP-100749 and MP- 100747) Georgia Coastal Ecosystem LTER, OCE-1832178; (SP-70 and SP-72) Eastern Shoshone, Shoshone-Bannock; (MP- 102944) Funded by Oregon Watershed Enhancement Board. On the traditional lands of the Confederated Tribes of the Siletz, Confederated Tribes of the Grand Rhonde, and the Clatsop-Nehalem Confederated Tribe; (MP- 100607) Holiday Creek is located on the traditional territory of the Monacan Indian Nation; (SP-45) Lafayette Blue Springs State Park; (MP-102420) NSF DEB-2016749; (MP-100019) New Hampshire Agriculture Experiment Station; (SP-35) Rayonier (land owner; https://www.rayonier.com/); (MP- 101276) US Department of Energy, Office of Science, Biological and Environmental Research, Subsurface Biogeochemical Research, Watershed Dynamics and Evolution SFA at ORNL; (MP- 103224) Watershed Dynamics and Evolution SFA at ORNL; (MP- 101584) Traditional lands of the Oceti Sakowin (Dakota, Lakota, Nakoda) and Anishinaabe Peoples.

54 ENVIRONMENTAL SCIENCES↗