Results 501-550 of 2119 (2088 ASCL, 31 submitted)
Rockstar (Robust Overdensity Calculation using K-Space Topologically Adaptive Refinement) identifies dark matter halos, substructure, and tidal features. The approach is based on adaptive hierarchical refinement of friends-of-friends groups in six phase-space dimensions and one time dimension, which allows for robust (grid-independent, shape-independent, and noise-resilient) tracking of substructure. Our method is massively parallel (up to 10^5 CPUs) and runs on the largest current simulations (>10^10 particles) with high efficiency (10 CPU hours and 60 gigabytes of memory required per billion particles analyzed). Rockstar offers significant improvement in substructure recovery as compared to several other halo finders.
Roche is a visualization and analysis tool for drawing the Roche-lobe geometry of evolving binaries. Roche can be used as a standalone program reading data from the command line or from a file generated by SeBa (ascl:1201.003). Eventually Roche will be able to read data from any other binary evolution program. Roche requires Starlab (ascl:1010.076) version 4.1.1 or later and the pgplot (ascl:1103.002) libraries. Roche creates a series of images, based on the SeBa output file SeBa.data, displaying the evolutionary state of a binary.
ROBOSPECT, written in C, automatically measures and deblends line equivalent widths for absorption and emission spectra. ROBOSPECT should not be used for stars with spectra in which there is no discernible continuum over large wavelength regions, nor for the most carbon-enhanced stars for which spectral synthesis would be favored. Although ROBOSPECT was designed for metal-poor stars, it is capable of fitting absorption and emission features in a variety of astronomical sources.
Robbie automates cataloging sources, finding variables, and identifying transients in the image domain. It works in a batch processing paradigm with a modular design so components can be swapped out or upgraded to adapt to different input data while retaining a consistent and coherent methodological approach. Robbie is based on commonly used and open software, including AegeanTools (ascl:1212.009) and STILS/TOPCAT (ascl:1101.010).
ROBAST (ROOT-based simulator for ray tracing) is a non-sequential ray-tracing simulation library developed for wide use in optical simulations of gamma-ray and cosmic-ray telescopes. The library is written in C++ and fully utilizes the geometry library of the ROOT analysis framework, and can build the complex optics geometries typically used in cosmic ray experiments and ground-based gamma-ray telescopes.
This program determines stellar population parameters (e.g. age, metallicity, IMF slope,...), using as input a pair of line-strength indices, through the interpolation in SSP model predictions. Both linear and bivariate fits are computed to perform the interpolation.
RMHB is a hierarchical Bayesian code for reverberation mapping (RM) that combines results of a sparsely sampled broad line region (BLR) light curve and a large sample of active galactic nuclei (AGN) to infer properties of the sample of the AGN. The key idea of RM is to measure the time lag τ between variations in the continuum emission from the accretion disc and subsequent response of the broad line region (BLR). The measurement of τ is typically used to estimate the physical size of the BLR and is combined with other measurements to estimate the black hole mass MBH. A major difficulty with RM campaigns is the large amount of data needed to measure τ. RMHB allows a clear interpretation of a posterior distribution for hyperparameters describing the sample of AGN.
Rmfit uses a forward-folding technique to obtain the best-fit parameters for a chosen model given user-selected source and background time intervals from data files containing observed count rates and a corresponding detector response matrix. rmfit displays lightcurves and spectra using a graphical interface that enables user-defined integrated or time-resolved spectral fits and binning in either time or energy. Originally developed for the analysis of BATSE Gamma-Ray Burst (GRB) spectroscopy, rmfit is a tool for the spectroscopy of transient sources; it accommodates the Fermi GBM and LAT data and Swift BAT.
RMextract calculates Ionospheric Faraday Rotation for a given epoch, location and line of sight. This Python code extracts TEC, vTEC, Earthmagnetic field and Rotation Measures from GPS and WMM data for radio interferometry observations.
RM-CLEAN reads in dirty Q and U cubes, generates rmtf based on the frequencies given in an ASCII file, and cleans the RM spectra following the algorithm given by Brentjens (2007). The output cubes contain the clean model components and the CLEANed RM spectra. The input cubes must be reordered with mode=312, and the output cubes will have the same ordering and thus must be reordered after being written to disk. RM-CLEAN runs as a MIRIAD (ascl:1106.007) task and a Python wrapper is included with the code.
RLOS (Relativistic Line Of Sight) uses hydrocode output data, such as that from PLUTO (ascl:1010.045), to create synthetic images depicting what a model relativistic astrophysical jet looks like to a stationary observer. The approximate time-delayed imaging algorithm used is implemented within existing line-of-sight code. The software has the potential to study a variety of dynamical astrophysical phenomena in collaboration with other imaging and simulation tools.
RICH (Racah Institute Computational Hydrodynamics) is a 2D hydrodynamic code based on Godunov's method. The code, largely based on AREPO, acts on an unstructured moving mesh. It differs from AREPO in the interpolation and time advancement scheme as well as a novel parallelization scheme based on Voronoi tessellation. Though not universally true, in many cases a moving mesh gives better results than a static mesh: where matter moves one way and a sound wave is traveling in the other way (such that relative to the grid the wave is not moving), a static mesh gives better results than a moving mesh. RICH is designed in an object oriented, user friendly way that facilitates incorporation of new algorithms and physical processes.
RHOCUBE models 3D density distributions on a discrete Cartesian grid and their integrated 2D maps. It can be used for a range of applications, including modeling the electron number density in LBV shells and computing the emission measure. The RHOCUBE Python package provides several 3D density distributions, including a powerlaw shell, truncated Gaussian shell, constant-density torus, dual cones, and spiralling helical tubes, and can accept additional distributions. RHOCUBE provides convenient methods for shifts and rotations in 3D, and if necessary, an arbitrary number of density distributions can be combined into the same model cube and the integration ∫ dz performed through the joint density field.
RH 1.5D performs Zeeman multi-level non-local thermodynamical equilibrium calculations with partial frequency redistribution for an arbitrary amount of chemical species. Derived from the RH code and written in C, it calculates spectra from 3D, 2D or 1D atmospheric models on a column-by-column basis (or 1.5D). It includes optimization features to speed up or improve convergence, which are particularly useful in dynamic models of chromospheres. While one should be aware of its limitations, the calculation of spectra using the 1.5D or column-by-column is a good approximation in many cases, and generally allows for faster convergence and more flexible methods of improving convergence. RH 1.5D scales well to at least tens of thousands of CPU cores.
RGW is a lightweight R-language implementation of the affine-invariant Markov Chain Monte Carlo sampling method of Goodman & Weare (2010). The implementation is based on the description of the python package emcee (ascl:1303.002).
rfpipe supports Python-based analysis of radio interferometric data (especially from the Very Large Array) and searches for fast radio transients. This extends on the rtpipe library (ascl:1706.002) with new approaches to parallelization, acceleration, and more portable data products. rfpipe can run in standalone mode or be in a cluster environment.
REVOLVER reconstructs real space positions from redshift-space tracer data by subtracting RSD through FFT-based reconstruction (optional) and applies void-finding algorithms to create a catalogue of voids in these tracers. The tracers are normally galaxies from a redshift survey but could also be halos or dark matter particles from a simulation box. Two void-finding routines are provided. The first is based on ZOBOV (ascl:1304.005) and uses Voronoi tessellation of the tracer field to estimate the local density, followed by a watershed void-finding step. The second is a voxel-based method, which uses a particle-mesh interpolation to estimate the tracer density, and then uses a similar watershed algorithm. Input data files can be in FITS format, or ASCII- or NPY-formatted data arrays.
RESOLVE is a Bayesian inference algorithm for image reconstruction in radio interferometry. It is optimized for extended and diffuse sources. Features include parameter-free Bayesian reconstruction of radio continuum data with a focus on extended and weak diffuse sources, reconstruction with uncertainty propagation dependent on measurement noise, and estimation of the spatial correlation structure of the radio astronomical source. RESOLVE provides full support for measurement sets and includes a simulation tool (if uv-coverage is provided).
RequiSim computes the Variance Weighted Overlap, which is a measure of the bias on the lensing signal from power spectrum modelling bias for any non-linear model. It assumes that the bias on the power spectrum is Gaussian with a covariance described by a user-provided knowledge matrix that describes the covariance in the bias on the power spectrum. The data from the Euclid wide-field survey are included.
REPS (REscaled Power Spectra) provides accurate, one-percent level, numerical simulations of the initial conditions for massive neutrino cosmologies, rescaling the late-time linear power spectra to the simulation initial redshift.
repack re-packs and compresses line-transition data for radiative-transfer calculations. It identifies the strong lines that dominate the spectrum from the large-majority of weaker lines, returning a binary line-by-line (LBL) file with the strong lines info (wavenumber, Elow, gf, and isotope ID), and an ASCII file with the combined contribution of the weaker lines compressed into a continuum extinction coefficient (in cm-1 amagat-1) as function of wavenumber and temperature.
RegPT computes the power spectrum in flat wCDM class models based on the RegPT treatment when provided with either of transfer function or matter power spectrum. It then gives the multiple-redshift outputs for power spectrum, and optionally provides correlation function data. The Fortran code has two major options for power spectrum calculations; -fast, which quickly computes the power spectrum at two-loop level (typically a few seconds) using the pre-computed data set of PT kernels for fiducial cosmological models, and -direct, in which the code first applies the fast method, and then follows the regularized expression for power spectrum to directly evaluate the multi-dimensional integrals. The output results are the power spectrum of direct calculation and difference of the results between fast and direct method. The code also gives the data set of PT diagrams necessary for power spectrum calculations from which the power spectrum can be constructed.
RegiStax is software for alignment/stacking/processing of images; it was released over 10 years ago and continues to be developed and improved. The current version is RegiStax 6, which supports the following formats: AVI, SER, RFL (RegiStax Framelist), BMP, JPG, TIF, and FIT. This version has a shorter and simpler processing sequence than its predecessor, and optimizing isn't necessary anymore as a new image alignment method optimizes directly. The interface of RegiStax 6 has been simplified to look more uniform in appearance and functionality, and RegiStax 6 now uses Multi-core processing, allowing the user to have up to have multiple cores(recommended to use maximally 4) working simultaneous during alignment/stacking.
Reflex provides an easy and flexible way to reduce VLT/VLTI science data using the ESO pipelines. It allows graphically specifying the sequence in which the data reduction steps are executed, including conditional stops, loops and conditional branches. It eases inspection of the intermediate and final data products and allows repetition of selected processing steps to optimize the data reduction. The data organization necessary to reduce the data is built into the system and is fully automatic; advanced users can plug their own modules and steps into the data reduction sequence. Reflex supports the development of data reduction workflows based on the ESO Common Pipeline Library. Reflex is based on the concept of a scientific workflow, whereby the data reduction cascade is rendered graphically and data seamlessly flow from one processing step to the next. It is distributed with a number of complete test datasets so users can immediately start experimenting and familiarize themselves with the system.
The astronomical data reduction package REDUCEME reduces and analyzes long-slit spectroscopic data. The package uses the unformatted FORTRAN raw data format, so requires FITS files be transformed to REDUCEME format; the reverse operation (from REDUCEME to FITS format) is also available. The package is a set of programs written in FORTRAN 77 and includes shell scripts (using the C shell syntax) to perform routine tasks; it can be extended by the inclusion of external programs. REDUCEME uses PGPLOT (ascl:1103.002) for line plots and images, and a subset of subroutines, called BUTTON, enables the user to communicate interactively with the image display employing graphic buttons. One advantage of using REDUCEME is that for each image an associated error image can also be processed throughout the reduction process, allowing for a careful control of the error propagation.
REDSPEC is an IDL based reduction package designed with NIRSPEC in mind though can be used to reduce data from other spectrographs as well. REDSPEC accomplishes spatial rectification by summing an A+B pair of a calibration star to produce an image with two spectra; the image is remapped on the basis of polynomial fits to the spectral traces and calculation of gaussian centroids to define their separation, producing straight spectral traces with respect to the detector rows. The raw images are remapped onto a coordinate system with uniform intervals in spatial extent along the slit and in wavelength along the dispersion axis.
RECFAST calculates the recombination of H, HeI, and HeII in the early Universe; this involves a line-by-line treatment of each atomic level. It differs in comparison to previous calculations in two major ways: firstly, the ionization fraction x_e is approximately 10% smaller for redshifts <~800, due to non-equilibrium processes in the excited states of H, and secondly, HeI recombination is much slower than previously thought, and is delayed until just before H recombines. RECFAST enables fast computation of the ionization history (and quantities such as the power spectrum of CMB anisotropies which depend on it) for arbitrary cosmologies.
REBOUND is a multi-purpose N-body code which is freely available under an open-source license. It was designed for collisional dynamics such as planetary rings but can also solve the classical N-body problem. It is highly modular and can be customized easily to work on a wide variety of different problems in astrophysics and beyond.
REBOUND comes with three symplectic integrators: leap-frog, the symplectic epicycle integrator (SEI) and a Wisdom-Holman mapping (WH). It supports open, periodic and shearing-sheet boundary conditions. REBOUND can use a Barnes-Hut tree to calculate both self-gravity and collisions. These modules are fully parallelized with MPI as well as OpenMP. The former makes use of a static domain decomposition and a distributed essential tree. Two new collision detection modules based on a plane-sweep algorithm are also implemented. The performance of the plane-sweep algorithm is superior to a tree code for simulations in which one dimension is much longer than the other two and in simulations which are quasi-two dimensional with less than one million particles.
The freely available Monte Carlo code REAS for modelling radio emission from cosmic ray air showers has evolved to include the full complexity of air shower physics. REAS3 improves the calculation of the emission contributions, which was not fully consistent in earlier versions of REAS, by incorporating the missing radio emission due to the variation of the number of charged particles during the air shower evolution using an "end-point formalism". With the inclusion of these emission contributions, the structure of the simulated radio pulses changes from unipolar to bipolar, and the azimuthal emission pattern becomes nearly symmetric. Remaining asymmetries can be explained by radio emission due to the variation of the net charge excess in air showers, which is automatically taken into account in the new implementation. REAS3 constitutes the first self-consistent time-domain implementation based on single particle emission taking the full complexity of air shower physics into account, and is freely available for all interested users. REAS3 has been superseded by CoREAS (ascl:1406.003).
REALMAF is a maximum-a-posteriori code to measure magnetic power spectra from Faraday rotation data. It uses a sophisticated model for the magnetic autocorrelation in real space, thus alleviating the need for simplifying assumptions in the processing. REALMAF treats the divergence relation of the magnetic field with a multiplicative factor in Fourier space, which allows modeling the magnetic autocorrelation as a spherically symmetric function.
RDGEN is a collection of routines for data handling, display, and adjusting, with a facility which helps to set up files for using with VPFIT (ascl:1408.015); it is included in the VPFIT distribution file. It is useful for setting region boundaries and initial guesses for VPFIT, for displaying the accumulated results, for examining by eye particular redshift systems and fits to them, testing that the error array is a true reflection of the rms scatter in the data, comparing spectra and generally examining and even modifying the data.
The RC3 mosaicking pipeline creates color composite images and scientifically-calibrated FITS mosaics in all SDSS imaging bands for all the RC3 galaxies that lie within the survey’s footprint and on photographic plates taken by the Digitized Palomar Observatory Sky Survey (DPOSS) for the B, R, IR bands. The pipeline uses SExtractor (ascl:1010.064) for extraction and STIFF (ascl:1110.006) to generating color images. The mosaicking program uses a recursive algorithm for positional update first to correct the positional inaccuracy inherent in the RC3 catalog, then conducts the mosaicking procedure using the Astropy (ascl:1304.002) wrapper to IPAC's Montage (ascl:1010.036) software. The program is generalized into a pipeline that can be easily extended to future survey data or other source catalogs; an online interface is available at
Time-distance helioseismology aims to measure and interpret the travel times of waves propagating between two points located on the solar surface. The travel times are then inverted to infer sub-surface properties that are encoded in the measurements. The trajectory of the waves generally follows that of the infinite-frequency ray path, although they are sensitive to perturbations off of this path. Finite-frequency sensitivity kernels are thus needed to give more accurate inversion results.
Ray tracing codes calculate travel time kernels for a ray. There are three main codes which calculate the group time as a function of distance, the ray paths as well as the phase and group times along the path, and the ray kernels for the sound speed squared.
RATRAN is a numerical method and computer code to calculate the radiative transfer and excitation of molecular lines. The approach is based on the Monte Carlo method, and incorporates elements from Accelerated Lambda Iteration. It combines the flexibility of the former with the speed and accuracy of the latter. Convergence problems known to plague Monte Carlo methods at large optical depth (>100) are avoided by separating local contributions to the radiation field from the overall transfer problem. The random nature of the Monte Carlo method serves to verify the independence of the solution to the angular, spatial, and frequency sampling of the radiation field. This allows the method to be used in a wide variety of astrophysical problems without specific adaptations. Moreover, the code can be applied to all atoms or molecules for which collisional rate coefficients are available and any axially symmetric source model. Continuum emission and absorption by dust is explicitly taken into account but scattering is neglected. We expect this program to be an important tool in analyzing data from present and future infrared and (sub-)millimeter telescopes.
rate computes thermochemical-equilibrium abundances for a H-C-N-O system with known pressure, temperature, and elemental abundances. The output abundances are H2O, CH4, CO, CO2, NH3, C2H2, C2H4, HCN, and N2, H2, H, and He.
RascalC quickly estimates covariance matrices from two- or three-point galaxy correlation functions. Given an input set of random particle locations and a two-point correlation function (or input set of galaxy positions), RascalC produces an estimate of the associated covariance for a given binning strategy, with non-Gaussianities approximated by a ‘shot-noise-rescaling’ parameter. For the 2PCF, the rescaling parameter can be calibrated by dividing the particles into jackknife regions and comparing sample to theoretical jackknife covariance. RascalC can also be used to compute Legendre-binned covariances and cross-covariances between different two-point correlation functions.
RAPTOR produces accurate images, animations, and spectra of relativistic plasmas in strong gravity by numerically integrating the equations of motion of light rays and performing time-dependent radiative transfer calculations along the rays. The code is compatible with any analytical or numerical spacetime, is hardware-agnostic and may be compiled and run on both GPUs and CPUs. RAPTOR is useful for studying accretion models of supermassive black holes, performing time-dependent radiative transfer through general relativistic magneto-hydrodynamical (GRMHD) simulations and investigating the expected observational differences between the so-called fastlight and slow-light paradigms.
A new N-body and hydrodynamical code, called RAMSES, is presented. It has been designed to study structure formation in the universe with high spatial resolution. The code is based on Adaptive Mesh Refinement (AMR) technique, with a tree based data structure allowing recursive grid refinements on a cell-by-cell basis. The N-body solver is very similar to the one developed for the ART code (Kravtsov et al. 97), with minor differences in the exact implementation. The hydrodynamical solver is based on a second-order Godunov method, a modern shock-capturing scheme known to compute accurately the thermal history of the fluid component. The accuracy of the code is carefully estimated using various test cases, from pure gas dynamical tests to cosmological ones. The specific refinement strategy used in cosmological simulations is described, and potential spurious effects associated to shock waves propagation in the resulting AMR grid are discussed and found to be negligible. Results obtained in a large N-body and hydrodynamical simulation of structure formation in a low density LCDM universe are finally reported, with 256^3 particles and 4.1 10^7 cells in the AMR grid, reaching a formal resolution of 8192^3. A convergence analysis of different quantities, such as dark matter density power spectrum, gas pressure power spectrum and individual haloes temperature profiles, shows that numerical results are converging down to the actual resolution limit of the code, and are well reproduced by recent analytical predictions in the framework of the halo model.
RamsesGPU is a reimplementation of RAMSES (ascl:1011.007) which drops the adaptive mesh refinement (AMR) features to optimize 3D uniform grid algorithms for modern graphics processor units (GPU) to provide an efficient software package for astrophysics applications that do not need AMR features but do require a very large number of integration time steps. RamsesGPU provides an very efficient C++/CUDA/MPI software implementation of a second order MUSCL-Handcock finite volume fluid solver for compressible hydrodynamics as a magnetohydrodynamics solver based on the constraint transport technique. Other useful modules includes static gravity, dissipative terms (viscosity, resistivity), and forcing source term for turbulence studies, and special care was taken to enhance parallel input/output performance by using state-of-the-art libraries such as HDF5 and parallel-netcdf.
Raga (Relaxation in Any Geometry) is a Monte Carlo simulation method for gravitational dynamics of non-spherical stellar systems. It is based on the SMILE software (ascl:1308.001) for orbit analysis. It can simulate stellar systems with a much smaller number of particles N than the number of stars in the actual system, represent an arbitrary non-spherical potential with a basis-set or spline spherical-harmonic expansion with the coefficients of expansion computed from particle trajectories, and compute particle trajectories independently and in parallel using a high-accuracy adaptive-timestep integrator. Raga can also model two-body relaxation by local (position-dependent) velocity diffusion coefficients (as in Spitzer's Monte Carlo formulation) and adjust the magnitude of relaxation to the actual number of stars in the target system, and model the effect of a central massive black hole.
Radynversion infers solar atmospheric properties during a solar flare. The code is based on an Invertible Neural Network (INN) that is trained to learn an approximate bijective mapping between the atmospheric properties of electron density, temperature, and bulk velocity (all as a function of altitude), and the observed Hα and Ca II λ8542 line profiles. As information is lost in the forward process of radiation transfer, this information is injected back into the model during the inverse process by means of a latent space; the training allows this latent space to be filled using an n-dimensional unit Gaussian distribution, where n is the dimensionality of the latent space. The code is based on a model trained by simulations made by RADYN, a 1D non-equilibrium radiation hydrodynamic model with good optically thick radiation treatment that does not consider magnetic effects.
RadVel models Keplerian orbits in radial velocity (RV) time series. The code is written in Python with a fast Kepler's equation solver written in C. It provides a framework for fitting RVs using maximum a posteriori optimization and computing robust confidence intervals by sampling the posterior probability density via Markov Chain Monte Carlo (MCMC). RadVel can perform Bayesian model comparison and produces publication quality plots and LaTeX tables.
The RADPACK package, written in IDL, contains both data and software. The data are the constraints on the cosmic microwave background (CMB) angular power spectrum from all published data as of 9/99. A unique aspect of this compilation is that the non-Gaussianity of the uncertainties has been characterized. The most important program in the package, written in the IDL language, is called chisq.pro and calculates $chi^2$, for an input power spectrum, according to the offset log-normal form of Bond, Jaffe and Knox (astro-ph/9808264). chisq.pro also outputs files that are useful for examining the residuals (the difference between the predictions of the model and the data). There is an sm macro for plotting up the residuals, and a histogram of the residuals. The histogram is actually for the 'whitenend' residuals ---a linear combination of the residuals which leaves them uncorrelated and with unit variance. The expectation is that the whitened residuals will be distributed as a Gaussian with unit variance.
radon performs a Fast Radon Transform (FRT) on image data for streak detection. The software finds short streaks and multiple streaks, convolves the images with a given PSF, and tracks the best S/N results and find a automatic threshold. It also calculates the streak parameters in the input image and the streak parameters in the input image. radon has a simulator that can make multiple streaks of different intensities and coordinates, and can simulate random streaks with parameters chosen uniformly in a user-defined range.
RADMC is a 2-D Monte-Carlo code for dust continuum radiative transfer circumstellar disks and envelopes. It is based on the method of Bjorkman & Wood (ApJ 2001, 554, 615), but with several modifications to produce smoother results with fewer photon packages.
RADMC-3D is a software package for astrophysical radiative transfer calculations in arbitrary 1-D, 2-D or 3-D geometries. It is mainly written for continuum radiative transfer in dusty media, but also includes modules for gas line transfer and gas continuum transfer. RADMC-3D is a new incarnation of the older software package RADMC (ascl:1108.016).
RADLite is a raytracer that is optimized for producing infrared line spectra and images from axisymmetric density structures, originally developed to function on top of the dust radiative transfer code RADMC. RADLite can consistently deal with a wide range of velocity gradients, such as those typical for the inner regions of protoplanetary disks. The code is intended as a back-end for chemical and excitation codes, and can rapidly produce spectra of thousands of lines for grids of models for comparison with observations. It includes functionality for simulating telescopic images for optical/IR/midIR/farIR telescopes. It takes advantage of multi-threaded CPUs and includes an escape-probability non-LTE module.
RADICAL is a multi-purpose 2-D radiative transfer code for axi-symmetric circumstellar (or circum-black-hole) envelopes /disks / tori etc. It has been extensively tested and found reliable and accurate. The code has recently been supplemented with a Variable Eddington Tensor module which enables it to solve dust continuum radiative transfer problems from very low up to extremely high optical depths with only a few (about 7) iterations at most.
RadFil is a radial density profile building and fitting tool for interstellar filaments. The software uses an image array and (in most cases) a boolean mask array that delineates the boundary of the filament to build and fit a radial density profile for the filaments.
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