Inversions of synthetic umbral flashes: selection of wavelength sampling

Imaging spectrographs are popular instruments used to obtain solar data. They record quasi-monochromatic images at selected wavelength positions. By scanning the spectral range of the line, it is possible to obtain bidimensional maps of the FoV with a moderate spectral resolution. In this work, we evaluate the quality of spectropolarimetric inversions obtained from various wavelength samplings during umbral flashes. We computed numerical simulations of nonlinear wave propagation in a sunspot and constructed synthetic Stokes profiles in the Ca II 8542 \AA\ line during an umbral flash using the NLTE code NICOLE. The spectral resolution of the Stokes profiles was downgraded to various cases with differences in the wavelength coverage. A large set of wavelength samplings was analyzed and the performance of the inversions was evaluated by comparing the inferred chromospheric temperature, velocity, and magnetic field with the actual values at the chromosphere of the numerical simulation. The errors in the inverted results depend to a large extent on the location of the wavelength points across the profile of the line. The inferred magnetic field improves with the increase of the spectral resolution. In the case of velocity and temperature, low spectral resolution data produce a match of the inverted atmospheres with the actual values comparable to wavelength samplings with finer resolution, while providing a higher temporal cadence in the data acquisition. We validated the NLTE inversions of spectropolarimetric data from the Ca II 8542 \AA\ during umbral flashes, during which the atmosphere undergoes sudden dramatic changes due to the propagation of a shock wave. Our results favor the use of fine spectral resolution for analyses that focus on the inference of the magnetic field, whereas the estimation of temperature and velocity fluctuations can be performed with lower spectral resolution.Comment: Accepted for publication in A&

Accelerating Multiframe Blind Deconvolution via Deep Learning

Ground-based solar image restoration is a computationally expensive procedure that involves nonlinear optimization techniques. The presence of atmospheric turbulence produces perturbations in individual images that make it necessary to apply blind deconvolution techniques. These techniques rely on the observation of many short exposure frames that are used to simultaneously infer the instantaneous state of the atmosphere and the unperturbed object. We have recently explored the use of machine learning to accelerate this process, with promising results. We build upon this previous work to propose several interesting improvements that lead to better models. As well, we propose a new method to accelerate the restoration based on algorithm unrolling. In this method, the image restoration problem is solved with a gradient descent method that is unrolled and accelerated aided by a few small neural networks. The role of the neural networks is to correct the estimation of the solution at each iterative step. The model is trained to perform the optimization in a small fixed number of steps with a curated dataset. Our findings demonstrate that both methods significantly reduce the restoration time compared to the standard optimization procedure. Furthermore, we showcase that these models can be trained in an unsupervised manner using observed images from three different instruments. Remarkably, they also exhibit robust generalization capabilities when applied to new datasets. To foster further research and collaboration, we openly provide the trained models, along with the corresponding training and evaluation code, as well as the training dataset, to the scientific community.Comment: 26 pages, 9 figures, accepted for publication in Solar Physic

Estimating the longitudinal magnetic field in the chromosphere of quiet-Sun magnetic concentrations

Details of the magnetic field in the quiet Sun chromosphere are key to our understanding of essential aspects of the solar atmosphere. We aim to determine the longitudinal magnetic field component (B_lon) of quiet Sun regions depending on their size. We estimated B_lon by applying the weak-field approximation (WFA) to high-spatial-resolution Ca II 854.2 nm data taken with the Swedish 1m Solar Telescope. Specifically, we analyzed the estimates inferred for different spectral ranges using the data at the original cadence and temporally integrated signals. The longitudinal magnetic field in each considered plasma structure correlates with its size. Using a spectral range restricted to the line core leads to chromospheric longitudinal fields varying from 50 G at the edges to 150-500 G at the center of the structure. These values increase as the spectral range widens due to the photospheric contribution. However, the difference between this contribution and the chromospheric one is not uniform for all structures. Small and medium-sized concentrations show a steeper height gradient in B_lon compared to their chromospheric values, so estimates for wider ranges are less trustworthy. Signal addition does not alleviate this situation as the height gradients in B_lon are consistent with time. Finally, despite the amplified noise levels that deconvolving processes may cause, data restored with the destretching technique show similar results, though are affected by smearing. We obtained B_lon estimates similar to those previously found, except for large concentrations and wide spectral ranges. In addition, we report a correlation between the height variation of B_lon compared to the chromospheric estimates and the concentration size. This correlation affects the difference between the photospheric and chromospheric magnetic flux values and the reliability of the estimates for wider spectral ranges.Comment: 14 pages, 14 figures. Accepted for publication in Astronomy & Astrophysics; abstract has been abridge

Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)

In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. For example, a key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process versus those that measure fl ux through the autophagy pathway (i.e., the complete process including the amount and rate of cargo sequestered and degraded). In particular, a block in macroautophagy that results in autophagosome accumulation must be differentiated from stimuli that increase autophagic activity, defi ned as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (inmost higher eukaryotes and some protists such as Dictyostelium ) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the fi eld understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. It is worth emphasizing here that lysosomal digestion is a stage of autophagy and evaluating its competence is a crucial part of the evaluation of autophagic flux, or complete autophagy. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. Along these lines, because of the potential for pleiotropic effects due to blocking autophagy through genetic manipulation it is imperative to delete or knock down more than one autophagy-related gene. In addition, some individual Atg proteins, or groups of proteins, are involved in other cellular pathways so not all Atg proteins can be used as a specific marker for an autophagic process. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field

The European Solar Telescope

The European Solar Telescope (EST) is a project aimed at studying the magnetic connectivity of the solar atmosphere, from the deep photosphere to the upper chromosphere. Its design combines the knowledge and expertise gathered by the European solar physics community during the construction and operation of state-of-the-art solar telescopes operating in visible and near-infrared wavelengths: the Swedish 1m Solar Telescope, the German Vacuum Tower Telescope and GREGOR, the French Télescope Héliographique pour l'Étude du Magnétisme et des Instabilités Solaires, and the Dutch Open Telescope. With its 4.2 m primary mirror and an open configuration, EST will become the most powerful European ground-based facility to study the Sun in the coming decades in the visible and near-infrared bands. EST uses the most innovative technological advances: the first adaptive secondary mirror ever used in a solar telescope, a complex multi-conjugate adaptive optics with deformable mirrors that form part of the optical design in a natural way, a polarimetrically compensated telescope design that eliminates the complex temporal variation and wavelength dependence of the telescope Mueller matrix, and an instrument suite containing several (etalon-based) tunable imaging spectropolarimeters and several integral field unit spectropolarimeters. This publication summarises some fundamental science questions that can be addressed with the telescope, together with a complete description of its major subsystems

The European Solar Telescope

The European Solar Telescope (EST) is a project aimed at studying the magnetic connectivity of the solar atmosphere, from the deep photosphere to the upper chromosphere. Its design combines the knowledge and expertise gathered by the European solar physics community during the construction and operation of state-of-the-art solar telescopes operating in visible and near-infrared wavelengths: the Swedish 1m Solar Telescope, the German Vacuum Tower Telescope and GREGOR, the French Télescope Héliographique pour l’Étude du Magnétisme et des Instabilités Solaires, and the Dutch Open Telescope. With its 4.2 m primary mirror and an open configuration, EST will become the most powerful European ground-based facility to study the Sun in the coming decades in the visible and near-infrared bands. EST uses the most innovative technological advances: the first adaptive secondary mirror ever used in a solar telescope, a complex multi-conjugate adaptive optics with deformable mirrors that form part of the optical design in a natural way, a polarimetrically compensated telescope design that eliminates the complex temporal variation and wavelength dependence of the telescope Mueller matrix, and an instrument suite containing several (etalon-based) tunable imaging spectropolarimeters and several integral field unit spectropolarimeters. This publication summarises some fundamental science questions that can be addressed with the telescope, together with a complete description of its major subsystems

Chromospheric Heating due to Cancellation of Quiet Sun Internetwork Fields

The heating of the solar chromosphere remains one of the most important questions in solar physics. Our current understanding is that small-scale internetwork (IN) magnetic fields play an important role as a heating agent. Indeed, cancellations of IN magnetic elements in the photosphere can produce transient brightenings in the chromosphere and transition region. These bright structures might be the signature of energy release and plasma heating, probably driven by the magnetic reconnection of IN field lines. Although single events are not expected to release large amounts of energy, their global contribution to the chromosphere may be significant due to their ubiquitous presence in quiet Sun regions. In this paper, we study cancellations of IN elements and analyze their impact on the energetics and dynamics of the quiet Sun atmosphere. We use high-resolution, multiwavelength, coordinated observations obtained with the Interface Region Imaging Spectrograph and the Swedish 1 m Solar Telescope (SST) to identify cancellations of IN magnetic flux patches and follow their evolution. We find that, on average, these events live for ∼3 minutes in the photosphere and ∼12 minutes in the chromosphere and/or transition region. Employing multi-line inversions of the Mg ii h and k lines, we show that cancellations produce clear signatures of heating in the upper atmospheric layers. However, at the resolution and sensitivity accessible to the SST, their number density still seems to be one order of magnitude too low to explain the global chromospheric heating.© 2018. The American Astronomical Society. All rights reserved.RIS is a NASA small explorer mission developed and operated by LMSAL with mission operations executed at NASA Ames Research center and major contributions to downlink communications funded by ESA and the Norwegian Space Centre. M.G. was supported by NASA grant NNX16AC34G. J.dl.C.R. is supported by grants from the Swedish Research Council (2015-03994), the Swedish National Space Board (128/15), and the Swedish Civil Contingencies Agency (MSB). This project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (SUNMAG, grant agreement 759548). B.D.P. was supported by NASA grant NNX11AN98G and NASA contracts NNG09FA40C (IRIS). The work of L.B.R. and S.E.P. was supported by the Spanish Ministerio de Economia and Competitividad through grants ESP2013-47349-C6-1-R and ESP2016-77548-C5-1-R, including a percentage from European FEDER funds. Image reconstruction was performed at IAA-CSIC supercomputing facilities. The Swedish 1 m Solar Telescope is operated by the Institute for Solar Physics of Stockholm University in the Spanish Observatorio del Roque de los Muchachos of the Instituto de Astrofisica de Canarias. M.C. was supported by the Research Council of Norway through its Centres of Excellence scheme, project number 262622, and through grants of computing time from the Programme for Supercomputing. This research has made use of NASA's Astrophysics Data System