20,123 research outputs found

    MAS: A versatile Landau-fluid eigenvalue code for plasma stability analysis in general geometry

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    We have developed a new global eigenvalue code, Multiscale Analysis for plasma Stabilities (MAS), for studying plasma problems with wave toroidal mode number n and frequency omega in a broad range of interest in general tokamak geometry, based on a five-field Landau-fluid description of thermal plasmas. Beyond keeping the necessary plasma fluid response, we further retain the important kinetic effects including diamagnetic drift, ion finite Larmor radius, finite parallel electric field, ion and electron Landau resonances in a self-consistent and non-perturbative manner without sacrificing the attractive efficiency in computation. The physical capabilities of the code are evaluated and examined in the aspects of both theory and simulation. In theory, the comprehensive Landau-fluid model implemented in MAS can be reduced to the well-known ideal MHD model, electrostatic ion-fluid model, and drift-kinetic model in various limits, which clearly delineates the physics validity regime. In simulation, MAS has been well benchmarked with theory and other gyrokinetic and kinetic-MHD hybrid codes in a manner of adopting the unified physical and numerical framework, which covers the kinetic Alfven wave, ion sound wave, low-n kink, high-n ion temperature gradient mode and kinetic ballooning mode. Moreover, MAS is successfully applied to model the Alfven eigenmode (AE) activities in DIII-D discharge #159243, which faithfully captures the frequency sweeping of RSAE, the tunneling damping of TAE, as well as the polarization characteristics of KBAE and BAAE being consistent with former gyrokinetic theory and simulation. With respect to the key progress contributed to the community, MAS has the advantage of combining rich physics ingredients, realistic global geometry and high computation efficiency together for plasma stability analysis in linear regime.Comment: 40 pages, 21 figure

    A hybrid quantum algorithm to detect conical intersections

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    Conical intersections are topologically protected crossings between the potential energy surfaces of a molecular Hamiltonian, known to play an important role in chemical processes such as photoisomerization and non-radiative relaxation. They are characterized by a non-zero Berry phase, which is a topological invariant defined on a closed path in atomic coordinate space, taking the value π\pi when the path encircles the intersection manifold. In this work, we show that for real molecular Hamiltonians, the Berry phase can be obtained by tracing a local optimum of a variational ansatz along the chosen path and estimating the overlap between the initial and final state with a control-free Hadamard test. Moreover, by discretizing the path into NN points, we can use NN single Newton-Raphson steps to update our state non-variationally. Finally, since the Berry phase can only take two discrete values (0 or π\pi), our procedure succeeds even for a cumulative error bounded by a constant; this allows us to bound the total sampling cost and to readily verify the success of the procedure. We demonstrate numerically the application of our algorithm on small toy models of the formaldimine molecule (\ce{H2C=NH}).Comment: 15 + 10 pages, 4 figure

    Soliton Gas: Theory, Numerics and Experiments

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    The concept of soliton gas was introduced in 1971 by V. Zakharov as an infinite collection of weakly interacting solitons in the framework of Korteweg-de Vries (KdV) equation. In this theoretical construction of a diluted soliton gas, solitons with random parameters are almost non-overlapping. More recently, the concept has been extended to dense gases in which solitons strongly and continuously interact. The notion of soliton gas is inherently associated with integrable wave systems described by nonlinear partial differential equations like the KdV equation or the one-dimensional nonlinear Schr\"odinger equation that can be solved using the inverse scattering transform. Over the last few years, the field of soliton gases has received a rapidly growing interest from both the theoretical and experimental points of view. In particular, it has been realized that the soliton gas dynamics underlies some fundamental nonlinear wave phenomena such as spontaneous modulation instability and the formation of rogue waves. The recently discovered deep connections of soliton gas theory with generalized hydrodynamics have broadened the field and opened new fundamental questions related to the soliton gas statistics and thermodynamics. We review the main recent theoretical and experimental results in the field of soliton gas. The key conceptual tools of the field, such as the inverse scattering transform, the thermodynamic limit of finite-gap potentials and the Generalized Gibbs Ensembles are introduced and various open questions and future challenges are discussed.Comment: 35 pages, 8 figure

    Évaluation de l'impact du changement climatique sur la défoliation de l'épinette noire par la tordeuse des bourgeons de l'épinette

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    Les modèles écologiques actuels prévoient de profonds effets des changements climatiques sur les régimes de perturbations naturelles des forêts. La tordeuse des bourgeons de l'épinette (Choristoneura fumiferana) (TBE) est le principal insecte défoliateur dans l'est de l'Amérique du Nord. Les épidémies de TBE ont un impact majeur sur la structure et la fonction de la forêt boréale canadienne puisque la défoliation entraîne une diminution de la croissance des arbres, une augmentation de la mortalité et une baisse de la productivité forestière. Les épidémies de TBE sont devenues plus sévères au cours du dernier siècle à cause des changements climatiques; cependant, nous savons peu de choses sur la manière dont l'effet intégré du climat et du TBE modifie la croissance des espèces hôtes. Nous évaluons ici comment l’interaction entre le climat et la gravité de l'épidémie affecte la croissance de l'épinette noire (Picea mariana) pendant l'épidémie de TBE qui a eu lieu entre 1968-1988 et 2006-2017. Nous avons compilé des séries dendrochronologiques (2271 arbres), des données de sévérité de l'épidémie (estimée par la défoliation aérienne observée) et des données climatiques pour 164 sites au Québec, Canada. Nous avons utilisé un modèle linéaire à effets mixtes pour déterminer l'impact des paramètres climatiques, de la défoliation cumulative (des cinq années précédentes) et de leur effet couplé sur la croissance en surface terrière. À la gravité maximale de l'épidémie, la croissance en surface terrière de l'épinette noire a été réduite de 14 à 18 % sur les cinq années en raison de l'effet TBE. Cette croissance a été affectée par le climat : des températures minimales estivales précédentes plus élevées et un indice d'humidité climatique estival plus élevé ont réduit la croissance de 11 % et 4 % respectivement. En revanche, l'effet négatif de la défoliation a été atténué de 9% pour une température minimale plus élevée au printemps précédent et de 7% pour une température maximale plus élevée l'été précédent. Cette étude améliore notre compréhension des effets combinés de la TBE et du climat et aide à prévoir les dommages futurs causés par cet insecte dans les peuplements forestiers afin de soutenir la gestion durable des forêts. Nous recommandons également que les projections des écosystèmes dans la forêt boréale incluent plusieurs classes de défoliation de la TBE et plusieurs scénarios climatiques

    The enterovirus genome can be translated in an IRES-independent manner that requires the initiation factors eIF2A/eIF2D

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    RNA recombination in positive-strand RNA viruses is a molecular-genetic process, which permits the greatest evolution of the genome and may be essential to stabilizing the genome from the deleterious consequences of accumulated mutations. Enteroviruses represent a useful system to elucidate the details of this process. On the biochemical level, it is known that RNA recombination is catalyzed by the viral RNA-dependent RNA polymerase using a template-switching mechanism. For this mechanism to function in cells, the recombining genomes must be located in the same subcellular compartment. How a viral genome is trafficked to the site of genome replication and recombination, which is membrane associated and isolated from the cytoplasm, is not known. We hypothesized that genome translation was essential for colocalization of genomes for recombination. We show that complete inactivation of internal ribosome entry site (IRES)-mediated translation of a donor enteroviral genome enhanced recombination instead of impairing it. Recombination did not occur by a nonreplicative mechanism. Rather, sufficient translation of the nonstructural region of the genome occurred to support subsequent steps required for recombination. The noncanonical translation initiation factors, eIF2A and eIF2D, were required for IRES-independent translation. Our results support an eIF2A/eIF2D-dependent mechanism under conditions in which the eIF2-dependent mechanism is inactive. Detection of an IRES-independent mechanism for translation of the enterovirus genome provides an explanation for a variety of debated observations, including nonreplicative recombination and persistence of enteroviral RNA lacking an IRES. The existence of an eIF2A/eIF2D-dependent mechanism in enteroviruses predicts the existence of similar mechanisms in other viruses

    Qluster: An easy-to-implement generic workflow for robust clustering of health data

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    The exploration of heath data by clustering algorithms allows to better describe the populations of interest by seeking the sub-profiles that compose it. This therefore reinforces medical knowledge, whether it is about a disease or a targeted population in real life. Nevertheless, contrary to the so-called conventional biostatistical methods where numerous guidelines exist, the standardization of data science approaches in clinical research remains a little discussed subject. This results in a significant variability in the execution of data science projects, whether in terms of algorithms used, reliability and credibility of the designed approach. Taking the path of parsimonious and judicious choice of both algorithms and implementations at each stage, this article proposes Qluster, a practical workflow for performing clustering tasks. Indeed, this workflow makes a compromise between (1) genericity of applications (e.g. usable on small or big data, on continuous, categorical or mixed variables, on database of high-dimensionality or not), (2) ease of implementation (need for few packages, few algorithms, few parameters, ...), and (3) robustness (e.g. use of proven algorithms and robust packages, evaluation of the stability of clusters, management of noise and multicollinearity). This workflow can be easily automated and/or routinely applied on a wide range of clustering projects. It can be useful both for data scientists with little experience in the field to make data clustering easier and more robust, and for more experienced data scientists who are looking for a straightforward and reliable solution to routinely perform preliminary data mining. A synthesis of the literature on data clustering as well as the scientific rationale supporting the proposed workflow is also provided. Finally, a detailed application of the workflow on a concrete use case is provided, along with a practical discussion for data scientists. An implementation on the Dataiku platform is available upon request to the authors

    Impacts of Tibetan Plateau sensible heat and El Niño–Southern Oscillation on precipitation over South China under the background of the PDO

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    This study aims to investigate the impacts of the spring sensible heat (SH) over the Tibetan Plateau (TP) and the El Niño–Southern Oscillation (ENSO) in the preceding wintertime on midsummer (July–August) precipitation over South China under the different Pacific decadal oscillation (PDO) phases. More specifically, eight classifications are adopted at the demarcation point around 1996 when the spring SH over the TP and the midsummer precipitation in South China occurred as well as the PDO phase transition, including positive and negative SHs and ENSOs under a positive PDO phase (1979–1996) and a negative PDO phase (1997–2019), respectively, based on the Niño-3 index and the spring SH calculated from 48 stations over the central and eastern parts of the TP. The results show that both the spring SH and the ENSO in preceding wintertime have a significant impact on the midsummer precipitation over South China; that is, when the two factors are in their respective positive (negative) phase, the midsummer precipitation in South China is generally less (more). Importantly, the phase change of background field PDO can significantly enhance the effect of the SH and the ENSO on summer precipitation over South China. Moreover, compared with the preceding wintertime ENSO, the spring SH over the TP contributes more to the midsummer precipitation in South China based on analyses of their independent and synergistic effects. The main mechanism responsible for the anomalous midsummer precipitation over South China are the combined effects of the South Asian high (SAH) and the western Pacific subtropical high (WPSH), which are controlled by the spring SH anomaly over the TP and the ENSO, respectively. Deep understanding of the dominant factors of the midsummer precipitation over South China will help understand the local climate change and reduce the losses caused by drought and flood disasters

    Worldtube excision method for intermediate-mass-ratio inspirals: scalar-field model in 3+1 dimensions

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    Binary black hole simulations become increasingly more computationally expensive with smaller mass ratios, partly because of the longer evolution time, and partly because the lengthscale disparity dictates smaller time steps. The program initiated by Dhesi et al. (arXiv:2109.03531) explores a method for alleviating the scale disparity in simulations with mass ratios in the intermediate astrophysical range (10−4≲q≲10−210^{-4} \lesssim q \lesssim 10^{-2}), where purely perturbative methods may not be adequate. A region ("worldtube") much larger than the small black hole is excised from the numerical domain, and replaced with an analytical model approximating a tidally deformed black hole. Here we apply this idea to a toy model of a scalar charge in a fixed circular geodesic orbit around a Schwarzschild black hole, solving for the massless Klein-Gordon field. This is a first implementation of the worldtube excision method in full 3+1 dimensions. We demonstrate the accuracy and efficiency of the method, and discuss the steps towards applying it for evolving orbits and, ultimately, in the binary black-hole scenario. Our implementation is publicly accessible in the SpECTRE numerical relativity code.Comment: 19 pages, 10 figure

    The role of magnetic fields in the fragmentation of the Taurus B213 filament into Sun-type star-forming cores

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    Fragmentation is a key step in the process of transforming clouds (and their substructures such as filaments, clumps, and cores) into protostars. The thermal gas pressure and gravitational collapse are believed to be the primary agents governing this process, referred to as the thermal Jeans fragmentation. However, the contributions of other factors (such as magnetic fields and turbulence) to the fragmentation process remain less explored. In this work, we have tested possible fragmentation mechanisms by estimating the mean core mass and mean inter-core separation of the B213 filament. We have used the ∼\sim14" resolution James Clerk Maxwell Telescope (JCMT) Submillimetre Common-User Bolometer Array 2 (SCUBA-2)/POL-2 850 μ\mum dust continuum map and combined it with a Planck 850 μ\mum map and Herschel data. We find that in addition to the thermal contribution, the presence of ordered magnetic fields could be important in the fragmentation of the B213 filament.Comment: 10 pages, 3 figures, and 5 tables ; Accepted for publication in JOA

    Four Lectures on the Random Field Ising Model, Parisi-Sourlas Supersymmetry, and Dimensional Reduction

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    Numerical evidence suggests that the Random Field Ising Model loses Parisi-Sourlas SUSY and the dimensional reduction property somewhere between 4 and 5 dimensions, while a related model of branched polymers retains these features in any dd. These notes give a leisurely introduction to a recent theory, developed jointly with A. Kaviraj and E. Trevisani, which aims to explain these facts. Based on the lectures given in Cortona and at the IHES in 2022.Comment: 55 pages, 11 figures; v2 - minor changes, mentioned forthcoming work by Fytas et a
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