We present Very Long Baseline Array observations of the radio galaxy 3C 120 at 5, 8, 12, and 15 GHz designed to study a peculiar stationary jet feature (hereafter C80) located ~80 mas from the core, ...which was previously shown to display a brightness temperature ~600 times larger than expected at such distances. The high sensitivity of the images-obtained between 2009 December and 2010 June-has revealed that C80 corresponds to the eastern flux density peak of an arc of emission (hereafter A80), downstream of which extends a large (~20 mas in size) bubble-like structure that resembles an inverted bow shock. The linearly polarized emission closely follows that of the total intensity in A80, with the electric vector position angle distributed nearly perpendicular to the arc-shaped structure. Despite the stationary nature of C80/A80, superluminal components with speeds up to 3 + or - 1 c have been detected downstream from its position, resembling the behavior observed in the HST-1 emission complex in M87. The total and polarized emission of the C80/A80 structure, its lack of motion, and brightness temperature excess are best reproduced by a model based on synchrotron emission from a conical shock with cone opening angle eta = 10degrees, jet viewing angle theta = 16degrees, a completely tangled upstream magnetic field, and upstream Lorentz factor gamma sub(u) = 8.4. The good agreement between our observations and numerical modeling leads us to conclude that the peculiar feature associated with C80/A80 corresponds to a conical recollimation shock in the jet of 3C 120 located at a de-projected distance of ~190 pc downstream from the nucleus.
We present a sequence of 12 monthly polarimetric 15, 22, and 43 GHz VLBA observations of the radio galaxy 3C 120 revealing a systematic presence of gradients in Faraday rotation and degree of ...polarization across and along the jet. The degree of polarization increases with distance from the core and toward the jet edges and has an asymmetric profile in which the northern side of the jet is more highly polarized. The Faraday rotation measure is also stratified across the jet width, with larger values for the southern side. We find a localized region of high Faraday rotation measure superposed on this structure between approximately 3 and 4 mas from the core, with a peak of similar to 6000 rad m super(-2). Interaction of the jet with the external medium or a cloud would explain the confined region of enhanced Faraday rotation, as well as the stratification in degree of polarization and the flaring of superluminal knots when crossing this region. The data are also consistent with a helical field in a two-fluid jet model, consisting of an inner, emitting jet and a sheath containing nonrelativistic electrons. However, this helical magnetic field model cannot by itself explain the localized region of enhanced Faraday rotation. The polarization electric vectors, predominantly perpendicular to the jet axis once corrected for Faraday rotation, require a dominant component parallel to the jet axis (in the frame of the emitting plasma) for the magnetic field in the emitting region.
Abstract
Background
Scientific publications are meant to exchange knowledge among researchers but the inability to properly reproduce computational experiments limits the quality of scientific ...research. Furthermore, bibliography shows that irreproducible preclinical research exceeds 50%, which produces a huge waste of resources on nonprofitable research at Life Sciences field. As a consequence, scientific reproducibility is being fostered to promote Open Science through open databases and software tools that are typically deployed on existing computational resources. However, some computational experiments require complex virtual infrastructures, such as elastic clusters of PCs, that can be dynamically provided from multiple clouds. Obtaining these infrastructures requires not only an infrastructure provider, but also advanced knowledge in the cloud computing field.
Objectives
The main aim of this paper is to improve reproducibility in life sciences to produce better and more cost-effective research. For that purpose, our intention is to simplify the infrastructure usage and deployment for researchers.
Methods
This paper introduces Advanced Platform for Reproducible Infrastructures in the Cloud via Open Tools (APRICOT), an open source extension for Jupyter to deploy deterministic virtual infrastructures across multiclouds for reproducible scientific computational experiments. To exemplify its utilization and how APRICOT can improve the reproduction of experiments with complex computation requirements, two examples in the field of life sciences are provided. All requirements to reproduce both experiments are disclosed within APRICOT and, therefore, can be reproduced by the users.
Results
To show the capabilities of APRICOT, we have processed a real magnetic resonance image to accurately characterize a prostate cancer using a Message Passing Interface cluster deployed automatically with APRICOT. In addition, the second example shows how APRICOT scales the deployed infrastructure, according to the workload, using a batch cluster. This example consists of a multiparametric study of a positron emission tomography image reconstruction.
Conclusion
APRICOT's benefits are the integration of specific infrastructure deployment, the management and usage for Open Science, making experiments that involve specific computational infrastructures reproducible. All the experiment steps and details can be documented at the same Jupyter notebook which includes infrastructure specifications, data storage, experimentation execution, results gathering, and infrastructure termination. Thus, distributing the experimentation notebook and needed data should be enough to reproduce the experiment.
We analyze the behavior of the parsec-scale jet of the quasar 3C 454.3 during pronounced flaring in 2005-2008. Three major disturbances propagated down the jet along different trajectories with ...Lorentz factors {Gamma} > 10. The disturbances show a clear connection with millimeter-wave outbursts, in 2005 May/June, 2007 July, and 2007 December. High-amplitude optical events in the R-band light curve precede peaks of the millimeter-wave outbursts by 15-50 days. Each optical outburst is accompanied by an increase in X-ray activity. We associate the optical outbursts with propagation of the superluminal knots and derive the location of sites of energy dissipation in the form of radiation. The most prominent and long lasting of these, in 2005 May, occurred closer to the black hole, while the outbursts with a shorter duration in 2005 autumn and in 2007 might be connected with the passage of a disturbance through the millimeter-wave core of the jet. The optical outbursts, which coincide with the passage of superluminal radio knots through the core, are accompanied by systematic rotation of the position angle of optical linear polarization. Such rotation appears to be a common feature during the early stages of flares in blazars. We find correlations between optical variations and those at X-ray and {gamma}-ray energies. We conclude that the emergence of a superluminal knot from the core yields a series of optical and high-energy outbursts, and that the millimeter-wave core lies at the end of the jet's acceleration and collimation zone. We infer that the X-ray emission is produced via inverse Compton scattering by relativistic electrons of photons both from within the jet (synchrotron self-Compton) and external to the jet (external Compton, or EC); which one dominates depends on the physical parameters of the jet. A broken power-law model of the {gamma}-ray spectrum reflects a steepening of the synchrotron emission spectrum from near-IR to soft UV wavelengths. We propose that the {gamma}-ray emission is dominated by the EC mechanism, with the sheath of the jet supplying seed photons for {gamma}-ray events that occur near the millimeter-wave core.
The source of Faraday rotation in the jet of the radio galaxy 3C 120 is analyzed through Very Long Baseline Array observations carried out between 1999 and 2007 at 86, 43, 22, 15, 12, 8, 5, 2, and ...1.7 GHz. Comparison of observations from 1999 to 2001 reveals uncorrelated changes in the linear polarization of the underlying jet emission and the Faraday rotation screen: while the rotation measure (RM) remains constant between approximately 2 and 5 mas from the core, the RM-corrected electric vector position angles (EVPAs) of two superluminal components are rotated by almost 90? when compared to other components moving through similar jet locations. On the other hand, the innermost 2 mas experiences a significant change in RM--including a sign reversal--but without variations in the RM-corrected EVPAs. Similarly, observations in 2007 reveal a double sign reversal in RM along the jet, while the RM-corrected EVPAs remain perpendicular to the jet axis. Although the observed coherent structure and gradient of the RM along the jet support the idea that the Faraday rotation is produced by a sheath of thermal electrons that surrounds the emitting jet, the uncorrelated changes in the RM and RM-corrected EVPAs indicate that the emitting jet and the source of Faraday rotation are not closely connected physically and have different configurations for the magnetic field and/or kinematical properties. Furthermore, the existence of a region of enhanced RM whose properties remain constant over three years requires a localized source of Faraday rotation, favoring a model in which a significant fraction of the RM originates in foreground clouds.
We present observations of a major outburst at centimeter, millimeter, optical, X-ray, and gamma -ray wavelengths of the BL Lacertae object AO 0235+164. We analyze the timing of multi-waveband ...variations in the flux and linear polarization, as well as changes in Very Long Baseline Array images at lambda = 7 mm with similar to 0.15 milliarcsec resolution. The association of the events at different wavebands is confirmed at high statistical significance by probability arguments and Monte Carlo simulations. A series of sharp peaks in optical linear polarization, as well as a pronounced maximum in the 7 mm polarization of a superluminal jet knot, indicate rapid fluctuations in the degree of ordering of the magnetic field. These results lead us to conclude that the outburst occurred in the jet both in the quasi-stationary 'core' and in the superluminal knot, both parsecs downstream of the supermassive black hole. We interpret the outburst as a consequence of the propagation of a disturbance, elongated along the line of sight by light-travel time delays, that passes through a standing recollimation shock in the core and propagates down the jet to create the superluminal knot. The multi-wavelength light curves vary together on long timescales (months/years), but the correspondence is poorer on shorter timescales. This, as well as the variability of the polarization and the dual location of the outburst, agrees with the expectations of a multi-zone emission model in which turbulence plays a major role in modulating the synchrotron and inverse Compton fluxes.
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