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Training toward significance with the decorrelated event classifier transformer neural network

Experimental particle physics uses machine learning for many tasks, where one application is to classify signal and background events. This classification can be used to bin an analysis region to enhance the expected significance for a mass resonance search. In natural language processing, one of the leading neural network architectures is the transformer. In this work, an event classifier transformer is proposed to bin an analysis region, in which the network is trained with special techniques. The techniques developed here can enhance the significance and reduce the correlation between the network’s output and the reconstructed mass. It is found that this trained network can perform better than boosted decision trees and feed-forward networks. Published by the American Physical Society 2024

Astronomy & Astrophysics↗

Towards smarter green infrastructure: Fusing bark ecology and stemflow hydrodynamics on tree stems

A wide array of bark surfaces sheath wooded plants in rural and urban areas alike. Much work has examined the function and role of bark in different contexts and different environs, including urban areas, finding that it is rich in life and can play a role in the transfer of water and matter to the ground surface. Accordingly, this paper presents a first step to weld and fuse bark ecology and stemflow hydrodynamics. It is an effort to develop a physically-based understanding of the transport of water and matter (e.g., solutes, particulates, microorganisms) along tree stems using relevant equations to allow a more informed consideration of bark in green infrastructure initiatives. In particular, the hydrodynamical equations are based on the conservation of water mass, conservation of momentum, and conservation of scalar mass. These equations, coupled with contemplation of corticular life, underpin and substantiate bark’s unifying role as a modulator and cultivator. By elucidating the ‘black box’ of the tree stem and utilizing the formulations set forth in this paper, urban foresters and planners can develop green infrastructure to help advance ecosystem services and sustainability development goals (SDG), especially SDG 11 and SDG 15.

60 APPLIED LIFE SCIENCES↗

Belowground respiration, root traits, and soil characteristics of an East Tennessee deciduous forest, 2019-2020

This dataset contains empirical physiological, morphological, and chemical data of root systems, and elemental, nutrient content for soils collected on forty individuals of eight temperate tree species, between June 2019 and July 2020 at The University of Tennessee Forest Research Center and Arboretum in Oak Ridge, Tennessee. The project used a novel methodology to empirically derive estimates of the autotrophic and heterotrophic components of soil respiration in-situ. The project consists of two measurement approaches. The first set of measurements uses a standard approach for measuring specific root respiration on excised root systems. The second used “in-situ root trays” This dataset includes 10 data files in comma separate (*.csv) ASCII format. Data include measurements of leaf and root functional traits for excised root systems and for living root systems housed within in-situ root trays, data on soil carbon and nitrogen pools, in-situ measurements of soil moisture and temperature, data on soil respiration rates for in-situ root trays (both as soil mass-based fluxes, and soil-area based fluxes), and data on the geographic coordinates and tree sizes of study trees. Forty study trees of eight temperate tree species were studied (five individuals per species). Two in-situ root trays were installed per species, each housing one entire root system comprising < 3 root orders, and still being attached to the tree via transportive root. All respiration measurements were conducted with the Li-6800 portable photosynthesis system (Li-COR, Lincoln, NE, USA). Root respiration measurements of excised root tissues were made using the Li-6800 and the Walz 3010-GWK1 gas exchange chamber (Heinz Walz GmbH, Effeltrich, Germany). Root scan images were analyzed using WinRHIZO. These images are companion files to this dataset and are contained in two compressed (*.zip) folders. Additional metadata are provided: 10 data dictionaries and a file-level metadata file in comma separate (*.csv) format and a user guide in PDF (*.pdf) format.

EARTH SCIENCE > BIOSPHERE > VEGETATION > LEAF CHAR↗

SysML Success Tree for DAVINCI In-Situ Campaign Requirements Validation and Redundancy Assessment

The DAVINCI mission will scientifically study the Venusian atmosphere to better understand the current state of the planet and its evolutionary history. This will be accomplished by deploying a descent probe to collect in-situ atmospheric dynamic and spectroscopic measurements, characterize ambient temperatures and pressures during descent, and surface imaging below the cloud layer. To better characterize the DAVINCI In-Situ Campaign, a success tree, developed in the SysML tool, MagicDraw, was created to define the events necessary to have a successful in-situ campaign, for each phase of the campaign. This success tree was also used to validate DAVINCI Program, Mission, and Element level requirements. In addition, because DAVINCI is a single-string mission, the success tree was also used to identify areas of redundancy and resiliency throughout the campaign. The initial redundancy assessment recommended further on-orbit evaluation of the probe’s communication system, as well as further evaluation of the ability of the mass spectrometer turbo-molecular pump to handle the expected decent environment. During the integration and test phase of the overall mission, the success tree will be used to guide the mission validation process, helping to ensure that the in-situ mission elements can perform in accordance with the DAVINCI In-Situ Concept of Operations document.

model-based↗

SysML Success Tree for DAVINCI In-Situ Campaign Requirements Validation and Redundancy Assessment

The DAVINCI mission will scientifically study the Venusian atmosphere to better understand the current state of the planet and its evolutionary history. This will be accomplished by deploying a descent probe to collect in-situ atmospheric dynamic and spectroscopic measurements, characterize ambient temperatures and pressures during descent, and surface imaging below the cloud layer. To better characterize the DAVINCI In-Situ Campaign, a success tree, developed in the SysML tool, MagicDraw, was created to define the events necessary to have a successful in-situ campaign, for each phase of the campaign. This success tree was also used to validate DAVINCI Program, Mission, and Element level requirements. In addition, because DAVINCI is a single-string mission, the success tree was also used to identify areas of redundancy and resiliency throughout the campaign. The initial redundancy assessment recommended further on-orbit evaluation of the probe’s communication system, as well as further evaluation of the ability of the mass spectrometer turbo-molecular pump to handle the expected decent environment. During the integration and test phase of the overall mission, the success tree will be used to guide the mission validation process, helping to ensure that the in-situ mission elements can perform in accordance with the DAVINCI In-Situ Concept of Operations document.

ConOps↗

SysML Success Tree for DAVINCI In-Situ Campaign Requirements Validation and Redundancy Assessment

The DAVINCI mission will scientifically study the Venusian atmosphere to better understand the current state of the planet and its evolutionary history. This will be accomplished by deploying a descent probe to collect in-situ atmospheric dynamic and spectroscopic measurements, characterize ambient temperatures and pressures during descent, and surface imaging below the cloud layer. To better characterize the DAVINCI In-Situ Campaign, a success tree, developed in the SysML tool, MagicDraw, was created to define the events necessary to have a successful in-situ campaign, for each phase of the campaign. This success tree was also used to validate DAVINCI Program, Mission, and Element level requirements. In addition, because DAVINCI is a single-string mission, the success tree was also used to identify areas of redundancy and resiliency throughout the campaign. The initial redundancy assessment recommended further on-orbit evaluation of the probe’s communication system, as well as further evaluation of the ability of the mass spectrometer turbo-molecular pump to handle the expected decent environment. During the integration and test phase of the overall mission, the success tree will be used to guide the mission validation process, helping to ensure that the in-situ mission elements can perform in accordance with the DAVINCI In-Situ Concept of Operations document.

model-based↗

Spatial Description of Lithium Plating

Fast charging lithium ion batteries is a critical obstacle to overcome before widespread uptake of electric vehicles. During fast charging, lithium ion batteries in electric vehicles degrade at an accelerated rate, which is frequently caused by lithium plating. In this presentation, three different methods to spatially and temporally detect and quantify lithium plating are presented; notably, mass spectroscopy titration, operando depth profiling X-ray diffraction, and in-situ X-ray diffraction mapping of pouch cells. Each of the tree techniques successfully quantify lithium plating and provide insight into its spatial occurrence within lithium ion cells.

47 OTHER INSTRUMENTATION↗

Mapping foliar photosynthetic capacity in sub-tropical and tropical forests with UAS-based imaging spectroscopy: Scaling from leaf to canopy

Accurate understanding of the variability in foliar physiological traits across landscapes is critical to improve parameterization and evaluation of terrestrial biosphere models (TBMs) that seek to represent the response of terrestrial ecosystems to a changing climate. Numerous studies suggest imaging spectroscopy can characterize foliar biochemical and morphological traits at the canopy scale, but there is only limited evidence for retrieving canopy photosynthetic capacity (e.g., maximum carboxylation rate, V c,max and maximum electron transport rate, J max ). Moreover, the effect of canopy structure within forest communities on scaling up spectra-trait relationships from leaf to canopy level is not well known. To advance the spectra-trait approach and enable the estimation of key traits using remote sensing, we collected imaging spectroscopy data from an Unoccupied Aerial System (UAS) platform over two forest sites in China (a subtropical forest in Mt. Dinghu and a tropical rainforest in Xishuangbanna). At these sites, we also collected ground measurements of leaf spectra and traits, including biochemical (leaf nitrogen, phosphorus, chlorophyll, and water content), morphological (leaf mass per area, LMA) and physiological (V c,max25 and J max25 ) traits (n=135 tree-crowns from 42 species across two sites). Using a partial least-squares regression (PLSR) approach, we built and tested spectra-trait models with repeated cross-validation. The spectral models developed with leaf spectra were directly transferred to canopy spectra to evaluate the effect of canopy structure. Here we further applied canopy spectral models to map these traits at individual tree-crown scale. The results demonstrate that (1) UAS-based canopy spectra can be used to estimate V c,max (R 2 =0.55, nRMSE=11.79%), Jmax (R 2 =0.54, nRMSE=12.34%), and five additional foliar traits (R 2 =0.38-0.60, nRMSE=10.11-13.56%) at the tree-crown scale with demonstrated generalizability across two sites; (2) canopy structure strongly affects the spectratrait relationships from leaf to canopy level, but the effects vary considerably across foliar traits and cannot be well captured by the 4SAIL canopy radiative transfer model. UAS-based imaging spectroscopy maps large variability in all foliar traits (including physiological traits) with spatially explicit information, reproducing the field-observed inter- and intra-specific variations. These results demonstrate the capability of using UAS-based imaging spectroscopy for characterizing the variability of foliar physiological traits at individual tree-crown scale over forest landscapes and highlight the similar generalizability but different biophysical mechanisms underlying spectra-trait relationships at leaf and canopy levels.

54 ENVIRONMENTAL SCIENCES↗

Modeling starch dynamics from seasonal variations of photosynthesis, growth and respiration

Abstract Nonstructural carbohydrates (NSCs) buffer differences in plant carbon supply (photosynthesis) and demand (respiration, growth, etc.), but the regulation of their dynamics remains unresolved. Seasonal variations in NSCs are well-documented, but differences in the time-average, amplitude, phase and other characteristics across ecosystems and functional types lack explanation; furthermore, observed dynamics do not always match expectations. The failure to match observed and expected dynamics has stimulated debate on whether carbon supply or demand drives NSC dynamics. To gain insight into how carbon supply and demand drive seasonal NSC dynamics, we derive a simple model of NSC dynamics based on carbon mass balance and linearizing the NSC demand to determine how supply-driven and demand-driven seasonal NSC dynamics differ. We find that supply-driven and demand-driven dynamics yield distinct timings of seasonal extrema, and supply overrides demand when carbon supply is low in winter (e.g., at high latitudes). Our results also suggest that NSC dynamics often lag changes carbon mass balance. We also predict differences in NSC dynamics across mass, suggesting that saplings are more dynamic and respond more quickly to the environment than mature trees. Our findings suggest that substrate-dependent regulation with environmental variation is sufficient to generate complex NSC dynamics.

Forestry↗

Update on the gradient flow scale on the 2+1+1 HISQ ensembles

We report on the ongoing effort of improving the determination of the gradient flow scale on the (2+1+1)-flavor HISQ ensembles generated by the MILC collaboration. We compute the scales $\sqrt{t_0}/a$ and $w_0/a$ with the Wilson and Symanzik flow using three discretizations for the action density: clover, Wilson and tree-level Symanzik improved. For the absolute scale setting, we intend to employ the $\Omega$-baryon mass, but are also using the pion decay constant while the $\Omega$-mass calculations are in progress.

Bazavov, Alexei↗

Cloud drop number concentrations over the western North Atlantic Ocean: seasonal cycle, aerosol interrelationships, and other influential factors

Cloud drop number concentrations (N d ) over the western North Atlantic Ocean (WNAO) are generally highest during the winter (DJF) and lowest in summer (JJA), in contrast to aerosol proxy variables (aerosoloptical depth, aerosol index, surface aerosol mass concentrations, surface cloud condensation nuclei (CCN) concentrations) that generally peak inspring (MAM) and JJA with minima in DJF. Using aircraft, satellite remote sensing, ground-based in situ measurement data, and reanalysis data, we characterize factors explaining the divergent seasonal cycles and furthermore probe into factors influencing N d on seasonal timescales. The results can be summarized well by features most pronounced in DJF, including features associated with cold-air outbreak (CAO) conditions such as enhanced values of CAO index, planetary boundary layer height (PBLH),low-level liquid cloud fraction, and cloud-top height, in addition to winds aligned with continental outflow. Data sorted into high- and low-N d days in each season, especially in DJF, revealed that all of these conditions were enhanced on the high-N d days, including reduced sea level pressure and stronger wind speeds. Although aerosols may be more abundant in MAM and JJA, the conditions needed to activate those particles into cloud droplets are weaker than in colder months, which is demonstrated by calculations of the strongest (weakest) aerosol indirect effects in DJF (JJA) based on comparing N d to perturbations in four different aerosol proxy variables (total and sulfate aerosol optical depth, aerosol index, surface mass concentration of sulfate). We used three machine learning models and up to 14 input variables to infer about most influential factors related to N d for DJF and JJA, with the best performance obtained with gradient-boosted regression tree (GBRT) analysis. The model results indicated that cloud fraction was the most important input variable, followed by some combination (depending on season) of CAO index and surface mass concentrations of sulfate and organic carbon. Future work is recommended to further understand aspects uncovered here such as impacts of free tropospheric aerosol entrainment on clouds, degree of boundary layer coupling, wet scavenging, and giant CCN effects on aerosol–N d relationships, updraft velocity, and vertical structure of cloud properties such as adiabaticity that impact the satellite estimation of N d .

54 ENVIRONMENTAL SCIENCES↗

Constraint Embedding Technique for Multibody System Dynamics

Multibody dynamics play a critical role in simulation testbeds for space missions. There has been a considerable interest in the development of efficient computational algorithms for solving the dynamics of multibody systems. Mass matrix factorization and inversion techniques and the O(N) class of forward dynamics algorithms developed using a spatial operator algebra stand out as important breakthrough on this front. Techniques such as these provide the efficient algorithms and methods for the application and implementation of such multibody dynamics models. However, these methods are limited only to tree-topology multibody systems. Closed-chain topology systems require different techniques that are not as efficient or as broad as those for tree-topology systems. The closed-chain forward dynamics approach consists of treating the closed-chain topology as a tree-topology system subject to additional closure constraints. The resulting forward dynamics solution consists of: (a) ignoring the closure constraints and using the O(N) algorithm to solve for the free unconstrained accelerations for the system; (b) using the tree-topology solution to compute a correction force to enforce the closure constraints; and (c) correcting the unconstrained accelerations with correction accelerations resulting from the correction forces. This constraint-embedding technique shows how to use direct embedding to eliminate local closure-loops in the system and effectively convert the system back to a tree-topology system. At this point, standard tree-topology techniques can be brought to bear on the problem. The approach uses a spatial operator algebra approach to formulating the equations of motion. The operators are block-partitioned around the local body subgroups to convert them into aggregate bodies. Mass matrix operator factorization and inversion techniques are applied to the reformulated tree-topology system. Thus in essence, the new technique allows conversion of a system with closure-constraints into an equivalent tree-topology system, and thus allows one to take advantage of the host of techniques available to the latter class of systems. This technology is highly suitable for the class of multibody systems where the closure-constraints are local, i.e., where they are confined to small groupings of bodies within the system. Important examples of such local closure-constraints are constraints associated with four-bar linkages, geared motors, differential suspensions, etc. One can eliminate these closure-constraints and convert the system into a tree-topology system by embedding the constraints directly into the system dynamics and effectively replacing the body groupings with virtual aggregate bodies. Once eliminated, one can apply the well-known results and algorithms for tree-topology systems to solve the dynamics of such closed-chain system.

Woo, Simon S.↗

Photosynthetic parameters and nutrient content of trees at the Panama crane sites.

This data package contains leaf chemistry and photosynthetic traits data from trees within the NGEE Tropics Parque Natural Metropolitano (PA-PNM) and Bosque Protector San Lorenzo (PA-SLZ) sites in Panama. Photosynthetic parameters including maximum photosynthesis, Vcmax, Jmax, and TPU, were calculated from A/Ci curves. Foliar nitrogen and phosphorus concentrations and leaf mass per unit leaf area of the leaves also were determined. The plants that were sampled were classified as to species, family, order, clade, and growth form (tree, liana, perennial herb, or other). Wood density of the tree and the source of that data also are included. Included in this data package is a zip file with a single Excel data file and CSV copies.

54 ENVIRONMENTAL SCIENCES↗

Development and Evaluation of an Order-N Formulation for Multi-Flexible Body Space Systems

This paper presents development of a generic recursive Order-N algorithm for systems with rigid and flexible bodies, in tree or closed-loop topology, with N being the number of bodies of the system. Simulation results are presented for several test cases to verify and evaluate the performance of the code compared to an existing efficient dense mass matrix-based code. The comparison brought out situations where Order-N or mass matrix-based algorithms could be useful.

Multibody dynamics↗

Comparing galaxy formation in the L-GALAXIES semi-analytical model and the IllustrisTNG simulations

ABSTRACT We perform a comparison, object by object and statistically, between the Munich semi-analytical model, L-GALAXIES, and the IllustrisTNG hydrodynamical simulations. By running L-GALAXIES on the IllustrisTNG dark matter-only merger trees, we identify the same galaxies in the two models. This allows us to compare the stellar mass, star formation rate, and gas content of galaxies, as well as the baryonic content of subhaloes and haloes in the two models. We find that both the stellar mass functions and the stellar masses of individual galaxies agree to better than ${\sim} 0.2\,$dex. On the other hand, specific star formation rates and gas contents can differ more substantially. At z = 0, the transition between low-mass star-forming galaxies and high-mass quenched galaxies occurs at a stellar mass scale ${\sim} 0.5\,$dex lower in IllustrisTNG than that in L-GALAXIES. IllustrisTNG also produces substantially more quenched galaxies at higher redshifts. Both models predict a halo baryon fraction close to the cosmic value for clusters, but IllustrisTNG predicts lower baryon fractions in group environments. These differences are primarily due to differences in modelling feedback from stars and supermassive black holes. The gas content and star formation rates of galaxies in and around clusters and groups differ substantially, with IllustrisTNG satellites less star forming and less gas rich. We show that environmental processes such as ram-pressure stripping are stronger and operate to larger distances and for a broader host mass range in IllustrisTNG. We suggest that the treatment of galaxy evolution in the semi-analytic model needs to be improved by prescriptions that capture local environmental effects more accurately.

79 ASTRONOMY AND ASTROPHYSICS↗

Leaf-level physiological strategies related to productivity and plasticity of Populus in the Southeastern United States

Introduction: Populus and its hybrids are attractive bioenergy crops and the southeastern United States has broad ability to supply bioenergy markets with woody biomass. Breeding and hybridization have led to superior eastern cottonwood (Populus deltoides W. Bartram ex Marshall) and hybrid poplars adapted to a wide variety of site types not suited for agricultural production. In order to maximize productivity and minimize inputs, genotypes need to efficiently use available site resources and tolerate environmental stresses. In addition, we need to determine plasticity of traits and their coordination across sites to select traits that will broadly characterize genotypes. Therefore, our study objectives were to determine (1) which leaf traits were correlated with growth, (2) if traits and genotypes exhibited significant plasticity across sites, and (3) how traits were coordinated within and across sites and Populus taxa. Methods: We measured trees at two sites in northeastern Mississippi, United States: one upland and one alluvial terrace site. Genotypes included eastern cottonwoods as well as F 1 crosses of eastern cottonwood and P. maximowiczii (Henry), P. nigra (L.) and P. trichocarpa (Torr. & Gray). Results: We found that sites differed in which leaf traits were correlated with productivity; with water use efficiency specifically being positively correlated with growth at an alluvial terrace site, but negatively correlated with growth at an upland site. Tree height growth, leaf isotope composition (δ 13 C and δ 15 N), as well as leaf mass per area (LMA) exhibited the least plasticity across sites, while physiological gas exchange parameters and leaf nitrogen concentration exhibited the highest plasticity. Broadly across taxa, leaf carbon isotope ratios were correlated with intrinsic water use efficiency, and stomatal conductance was positively correlated with photosynthetic nitrogen use efficiency across sites, while leaf nitrogen isotope ratios exhibited contrasting relationships with leaf nitrogen concentration. Discussion: Overall, these results allow us to refine selections of productive genotypes based on site conditions and site-specific relationships with physiological parameters to better match Populus taxa with sites and landowner objectives.

bioenergy feedstocks↗

Analysis of Upper Air, Ground and Remote Sensing Data for the Atlas Field Campaign in San Juan, Puerto Rico

The general climate of the island of Puerto Rico is dominated by the easterly trade winds from the Atlantic Ocean, and during synoptically calm days by the topographic and local land surface characteristics [1]. The urban canopy of the metropolitan area of San Juan, capital city of the Island, may introduce a new microclimate that changes the characteristics of the low atmosphere and interacts with the other microclimates already present in the island. The primitive land cover and land use (LCLU) of the metropolitan area of San Juan was composed by broadleaf trees, moist soils, and very dense vegetation in general. The urban LCLU changes the balance for the mass, momentum and energy between the bottom boundary and the lower atmosphere, creating different climate conditions over urban and rural regions. Some of these differences are low relative humidity and high temperatures observed in urban areas when compared to rural areas. These in turn produces a convective circulation over the urban areas, a phenomenon compared to the sea and land breezes, commonly known as heat islands (UHI). Factors that contribute to the formation of the UHI are anthropogenic heat sources, aerosols from pollutants, fast water canalization due to the presence of buildings and streets, among others. The comparison between urban and rural climates is the most common approach to analyze the UHI. These contrasts are larger in clear and calm conditions and tend to disappear in cloudy and windy weather. The UHI was recognized in the early 1950 s as closed isotherms that separates the city from the general temperature field [2]. The impact of the urban LCLU in San Juan, Puerto Rico, was quantified calculating the difference between historical data sets for the air temperature over an identified urban area and a rural area dT(U-R). The analysis of the climatological data revealed that a UHI exists in the metropolitan area of San Juan, Puerto Rico. The data reveals a permanent urban heat island effect present in the SJMA during the year, which is increasing at a rate of 0.41oC/decade. These findings encouraged the planning and execution of an intense field campaign in February 2004 referred as the ATLAS San Juan mission. The focus of the remaining of this report is the analysis of the data for this field campaign.

Gonzalez-Cruz, Jorge E.↗

The response of stomatal conductance to seasonal drought in tropical forests

Stomata regulate CO2 uptake for photosynthesis and water loss through transpiration. The approaches used to represent stomatal conductance (gs) in models vary. In particular, current understanding of drivers of the variation in a key parameter in those models, the slope parameter (i.e. a measure of intrinsic plant water-use-efficiency), is still limited, particularly in the tropics. Here we collected diurnal measurements of leaf gas exchange and water potential (?leaf), and a suite of plant traits from the upper canopy of 15 tropical trees in two contrasting Panamanian forests throughout the dry season of the 2016 El Niño. The plant traits included wood density, leaf-mass-per-area (LMA), leaf carboxylation capacity (Vc,max25), leaf water content, the degree of isohydry, and predawn ?leaf. We first investigated how the choice of four commonly used leaf-level gs models with and without the inclusion of ?leaf as an additional predictor variable influence the ability to predict gs, and then explored the abiotic (i.e. month, site-month interaction) and biotic (i.e. tree-species-specific characteristics) drivers of slope parameter variation. Our results show that the inclusion of ?leaf did not improve model performance and that the models that represent the response of gs to vapor pressure deficit performed better than corresponding models that respond to relative humidity. Within each gs model, we found large variation in the slope parameter, and this variation was attributable to the biotic driver, rather than abiotic drivers. We further investigated potential relationships between the slope parameter and the six available plant traits mentioned above, and found that only one trait, LMA, had a significant correlation with the slope parameter (R2=0.66, n=15), highlighting a potential path towards improved model parameterization. This study advances understanding of gs dynamics over seasonal drought, and identifies a practical, trait-based approach to improve modeling of carbon and water exchange in tropical forests.

carbon and water exchange, stomatal conductance mo↗