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22. Data for: "The origin of non-skeletal carbonate mud and implications for global climate"

Author(s):
Geyman, Emily C.; Wu, Ziman; Nadeau, Matthew D.; Edmonsond, Stacey; Turner, Andrew; Purkis, Sam J.; Howes, Bolton; Dyer, Blake; Ahm, Anne-Sofie C.; Yao, Nan; Deutsch, Curtis A.; Higgins, John A.; Stolper, Daniel A.; Maloof, Adam C.
Abstract:
Carbonate mud represents one of the most important geochemical archives for reconstructing ancient climatic, environmental, and evolutionary change from the rock record. Mud also represents a major sink in the global carbon cycle. Yet, there remains no consensus about how and where carbonate mud is formed. In this contribution, we present new geochemical data that bear on this problem, including stable isotope and minor and trace element data from carbonate sources in the modern Bahamas such as ooids, corals, foraminifera, and green algae.
Type:
Dataset
Issue Date:
16 June 2022

25. ELM-free and inter-ELM divertor heat flux broadening induced by Edge Harmonics Oscillation in NSTX

Author(s):
Gan, K.; Ahn, J.-W.; Gray, T.K.; Zweben, S.J.; Fredrickson, E.D.; Scotti, F.; Maingi, R.; Park, J.-K.; Canal, G.P.; Soukhanovskii, V.A.; McLean, A.G.; Wirth, B.D.
Abstract:
A new n=1 dominated Edge Harmonic Oscillation (EHO) has been found in NSTX. The new EHO, rotating toroidally in the counter-current direction and the opposite direction of the neutral beam, was observed during certain inter-ELM and ELM-free periods of H-mode operation. This EHO is associated with a significant broadening of the integral heat flux width (?_int) by up to 150%, and a decrease in the divertor peak heat flux by >60%. An EHO induced filament was also observed by the gas puff imaging diagnostic. The toroidal rotating filaments could change the edge magnetic topology resulting in toroidal rotating strike point splitting and heat flux broadening. Experimental result of the counter current rotation of strike points splitting is consistent with the counter-current EHO.
Type:
Dataset
Issue Date:
December 2017

26. M3D-C1 simulations of the plasma response to RMPs in NSTX-U single-null and snowflake divertor configurations

Author(s):
Canal, G.P.; Ferraro, N.M.; Evans, T.E.; Osborne, T.H.; Menard, J.E.; Ahn, J.-W.; Maingi, R.; Wingen, A.; Ciro, D.; Frerichs, H.; Schmitz, O.; Soukhanovskii, V.; Waters, I.
Abstract:
Non-axisymmetric control coils and the so-called snowflake divertor configuration are two potential solutions proposed to solve two separate outstanding issues on the path towards self-sustained burning plasma operations, namely the transient energy bursts caused by edge localized modes and the steady state heat exhaust problem. In a reactor, these two proposed solutions would have to operate simultaneously and it is, therefore, important to investigate their compatibility and to identify possible conflicts that could prevent them from operating simultaneously. In this work, single- and two-fluid resistive magnetohydrodynamic calculations are used to investigate the effect of externally applied magnetic perturbations on the snowflake divertor configuration. The calculations are based on simulated NSTX-U plasmas and the results show that additional and longer magnetic lobes are created in the null-point region of the snowflake configuration, compared to those in the conventional single-null. The intersection of these longer and additional lobes with the divertor plates are expected to cause more striations in the particle and heat flux target profiles. In addition, the results indicate that the size of the magnetic lobes, in both single-null and snowflake configurations, are more sensitive to resonant magnetic perturbations than to non-resonant magnetic perturbations. The results also suggest that lower values of current in non-axisymmetric control coils would be required to suppress edge localized modes in plasmas with the snowflake configuration.
Type:
Dataset
Issue Date:
July 2017

27. Overview of NSTX Upgrade Initial Results and Modelling Highlights

Author(s):
Menard, J.E.; Allain, J.P.; Battaglia, D.J.; Bedoya, F.; Bell, R.E.; Belova, E.; Berkery, J.W.; Boyer, M.D.; Crocker, N.; Diallo, A.; Ebrahimi, F.; Ferrraro, N.; Fredrickson, E.; Frerichs, H.; Gerhardt, S.; Gorelenkov, N.; Guttenfelder, W.; Heidbrink, W.; Kaita, R.; Kaye, S.M.; Kriete, D.M.; Kubota, S.; LeBlanc, B.P.; Liu, D.; Lunsford, R.; Mueller, D.; Myers, C.E.; Ono, M.; Park, J.-K.; Podesta, M.; Raman, R.; Reinke, M.; Ren, Y.; Sabbagh, S.A.; Schmitz, O.; Scotti, F.; Sechrest, Y.; Skinner, C.H.; Smith, D.R.; Soukhanovskii, V.; Stoltzfus-Dueck, T.; Yuh, H.; Wang, Z.; Waters, I.; Ahn, J.-W.; Andre, R.; Barchfeld, R.; Beiersdorfer, P.; Bertelli, N.; Bhattacharjee, A.; Boyle, D.; Brennan, D.; Buttery, R.; Capece, A.; Canal, G.; Canik, J.; Chang, C.S.; Darrow, D.; Delgado-Aparicio, L.; Domier, C.; Ethier, S.; Evans, T.; Ferron, J.; Finkenthal, M.; Fonck, R.; Gan, K.; Gates, D.; Goumiri, I.; Gray, T.; Hosea, J.; Humphreys, D.; Jarboe, T.; Jardin, S.; Jaworski, M.A.; Koel, B.; Kolemen, E.; Ku, S.; LaHaye, R.J.; Levinton, F.; Luhmann Jr., N.; Maingi, R.; Maqueda, R.; McKee, G.; Meier, E.; Myra, J.; Perkins, R.; Poli, F.; Rhodes, T.; Riquezes, J.; Rowley, C.; Russell, D.; Schuster, E.; Stratton, B.; Stutman, D.; Taylor, G.; Tritz, K.; Wang, W.; Wirth, B.; Zweben, S.J.
Abstract:
The National Spherical Torus Experiment (NSTX) has undergone a major upgrade, and the NSTX Upgrade (NSTX-U) Project was completed in the summer of 2015. NSTX-U first plasma was subsequently achieved, diagnostic and control systems have been commissioned, H-Mode accessed, magnetic error fields identified and mitigated, and the first physics research campaign carried out. During 10 run weeks of operation, NSTX-U surpassed NSTX-record pulse-durations and toroidal fields, and high-performance ~1MA H-mode plasmas comparable to the best of NSTX have been sustained near and slightly above the n=1 no-wall stability limit and with H-mode confinement multiplier H98y2 above 1. Transport and turbulence studies in L-mode plasmas have identified the coexistence of at least two ion-gyro-scale turbulent micro-instabilities near the same radial location but propagating in opposite (i.e. ion and electron diamagnetic) directions. These modes have the characteristics of ion-temperature gradient and micro-tearing modes, respectively, and the role of these modes in contributing to thermal transport is under active investigation. The new second more tangential neutral beam injection was observed to significantly modify the stability of two types of Alfven Eigenmodes. Improvements in offline disruption forecasting were made in the areas of identification of rotating MHD modes and other macroscopic instabilities using the Disruption Event Characterization and Forecasting (DECAF) code. Lastly, the Materials Analysis and Particle Probe (MAPP) was utilized on NSTX-U for the first time and enabled assessments of the correlation between boronized wall conditions and plasma performance. These and other highlights from the first run campaign of NSTX-U are described.
Type:
Dataset
Issue Date:
October 2017

28. Femtosecond X-ray Diffraction of Laser-shocked Forsterite (Mg2SiO4) to 122 GPa

Author(s):
Kim, Donghoon; Tracy, Sally J.; Smith, Raymond F.; Gleason, Arianna E.; Bolme, Cindy A.; Prakapenka, Vitali B.; Appel, Karen; Speziable, Sergio; Wicks, June K.; Berryman, Eleanor J.; Han, Sirus K.; Schoelmerich, Markus O.; Lee, Hae Ja; Nagler, Bob; Cunningham, Eric F.; Akin, Minta C.; Asimow, Paul D.; Eggert, Jon H.; Duffy, Thomas S.
Abstract:
The behavior of forsterite, Mg2SiO4, under dynamic compression is of fundamental importance for understanding its phase transformations and high-pressure behavior. Here, we have carried out an in situ X-ray diffraction study of laser-shocked poly- and single-crystal forsterite (a-, b-, and c- orientations) from 19 to 122 GPa using the Matter in Extreme Conditions end-station of the Linac Coherent Light Source. Under laser-based shock loading, forsterite does not transform to the high-pressure equilibrium assemblage of MgSiO3 bridgmanite and MgO periclase, as was suggested previously. Instead, we observe forsterite and forsterite III, a metastable polymorph of Mg2SiO4, coexisting in a mixed-phase region from 33 to 75 GPa for both polycrystalline and single-crystal samples. Densities inferred from X-ray diffraction data are consistent with earlier gas-gun shock data. At higher stress, the behavior observed is sample-dependent. Polycrystalline samples undergo amorphization above 79 GPa. For [010]- and [001]-oriented crystals, a mixture of crystalline and amorphous material is observed to 108 GPa, whereas the [100]-oriented crystal adopts an unknown crystal structure at 122 GPa. The Q values of the first two sharp diffraction peaks of amorphous Mg2SiO4 show a similar trend with compression as those observed for MgSiO3 glass in both recent static and laser-compression experiments. Upon release to ambient pressure, all samples retain or revert to forsterite with evidence for amorphous material also present in some cases. This study demonstrates the utility of femtosecond free-electron laser X-ray sources for probing the time evolution of high-pressure silicates through the nanosecond-scale events of shock compression and release.
Type:
Dataset
Issue Date:
November 2020

29. Fast animal pose estimation using deep neural networks

Author(s):
Pereira, Talmo D.; Aldarondo, Diego E.; Willmore, Lindsay; Kislin, Mikhail; Wang, Samuel S.-H.; Murthy, Mala; Shaevitz, Joshua W.
Abstract:
Recent work quantifying postural dynamics has attempted to define the repertoire of behaviors performed by an animal. However, a major drawback to these techniques has been their reliance on dimensionality reduction of images which destroys information about which parts of the body are used in each behavior. To address this issue, we introduce a deep learning-based method for pose estimation, LEAP (LEAP Estimates Animal Pose). LEAP automatically predicts the positions of animal body parts using a deep convolutional neural network with as little as 10 frames of labeled data for training. This framework consists of a graphical interface for interactive labeling of body parts and software for training the network and fast prediction on new data (1 hr to train, 185 Hz predictions). We validate LEAP using videos of freely behaving fruit flies (Drosophila melanogaster) and track 32 distinct points on the body to fully describe the pose of the head, body, wings, and legs with an error rate of <3% of the animal's body length. We recapitulate a number of reported findings on insect gait dynamics and show LEAP's applicability as the first step in unsupervised behavioral classification. Finally, we extend the method to more challenging imaging situations (pairs of flies moving on a mesh-like background) and movies from freely moving mice (Mus musculus) where we track the full conformation of the head, body, and limbs.
Type:
Dataset
Issue Date:
30 May 2018

30. Data corresponding to our paper on "Chemotactic smoothing of collective migration"

Author(s):
Bhattacharjee, Tapomoy; Amchin, Daniel; Alert, Ricard; Ott, Jenna; Datta, Sujit
Abstract:
Collective migration -- the directed, coordinated motion of many self-propelled agents -- is a fascinating emergent behavior exhibited by active matter that has key functional implications for biological systems. Extensive studies have elucidated the different ways in which this phenomenon may arise. Nevertheless, how collective migration can persist when a population is confronted with perturbations, which inevitably arise in complex settings, is poorly understood. Here, by combining experiments and simulations, we describe a mechanism by which collectively migrating populations smooth out large-scale perturbations in their overall morphology, enabling their constituents to continue to migrate together. We focus on the canonical example of chemotactic migration of Escherichia coli, in which fronts of cells move via directed motion, or chemotaxis, in response to a self-generated nutrient gradient. We identify two distinct modes in which chemotaxis influences the morphology of the population: cells in different locations along a front migrate at different velocities due to spatial variations in (i) the local nutrient gradient and in (ii) the ability of cells to sense and respond to the local nutrient gradient. While the first mode is destabilizing, the second mode is stabilizing and dominates, ultimately driving smoothing of the overall population and enabling continued collective migration. This process is autonomous, arising without any external intervention; instead, it is a population-scale consequence of the manner in which individual cells transduce external signals. Our findings thus provide insights to predict, and potentially control, the collective migration and morphology of cell populations and diverse other forms of active matter.
Type:
Dataset
Issue Date:
24 June 2021