Population Annealing with Weighted Averages: A Monte Carlo Method for Rough Free Energy Landscapes

The population annealing algorithm introduced by Hukushima and Iba is described. Population annealing combines simulated annealing and Boltzmann weighted differential reproduction within a population of replicas to sample equilibrium states. Population annealing gives direct access to the free energy. It is shown that unbiased measurements of observables can be obtained by weighted averages over many runs with weight factors related to the free energy estimate from the run. Population annealing is well suited to parallelization and may be a useful alternative to parallel tempering for systems with rough free energy landscapes such as spin glasses. The method is demonstrated for spin glasses.Comment: 9 pages, 5 figures; version 2 has improved figure 5 and new titl

What pops out in positional priming of pop-out: insights from event-related EEG lateralizations

It is well established that, in visual pop-out search, reaction time (RT) performance is influenced by cross-trial repetitions versus changes of target-defining attributes. One instance of this is referred to as “positional priming of pop-out” (pPoP; Maljkovic and Nakayama, 1996). In positional PoP paradigms, the processing of the current target is examined depending on whether it occurs at the previous target or a previous distractor location, relative to a previously empty location (“neutral” baseline), permitting target facilitation and distractor inhibition to be dissociated. The present study combined RT measures with specific sensory- and motor-driven event-related lateralizations to track the time course of four distinct processing levels as a function of the target’s position across consecutive trials. The results showed that, relative to targets at previous target and “neutral” locations, the appearance of a target at a previous distractor location was associated with a delayed build-up of the posterior contralateral negativity wave, indicating that distractor positions are suppressed at early stages of visual processing. By contrast, presentation of a target at a previous target, relative to “neutral” and distractor locations, modulated the elicitation of the subsequent stimulus-locked lateralized readiness potential wave, indicating that post-selective response selection is facilitated if the target occurred at the same position as on the previous trial. Overall, the results of present study provide electrophysiological evidence for the idea that target location priming (RT benefits) does not originate from an enhanced coding of target saliency at repeated (target) locations; instead, they arise (near-) exclusively from processing levels subsequent to focal-attentional target selection

Las Oolitas terruginosas del Jurásico de la sierra de Espuña (prov. de Murcia)

Se describe un corte situado en el Morrón de Alhama que abarca desde el Pliensbachense hasta el Jurásico medio, así como la fauna de Ammonites hallada en el mismo. Encima del Pliensbachense superior sigue el Toarcense inferior, condensado y recubierto por oolitas ferruginosas de hasta 5 m de potencia, que fueron ya dadas a conocer por P. FALLOT y otros autores. Encima siguen calizas bioclásticas potentes. Las oolitas ferruginosas contienen en su base un horizonte de condensación con una rica fauna de Ammonites dd Toarcense superior. Si fuera una fauna no condensada entonces permitiría la correlación con las sucesiones de zonas tanto la europea norteoccidental como la grecoitaliana. Aunque N. y Y. PEYRE (1960) describieron un horizonte de condensación rico en fósiles que representa correctamente el Pliensbachense superior (= Domerense) que fue hallado salo a 2,5 km de distancia, se admite que ambas oolitas ferruginosos corresponden más o menos al mismo nivel guía, concretamente equivalente a las "oolitas inferiores del límite" (Toarcense superior-Adenense), tanto de la Cordillera Ibérica, como de la "Costra limonítica inferior" (Toarcense superior-Bajocense inferior) de la zona subbética

Modified NASA-Lewis chemical equilibrium code for MHD applications

A substantially modified version of the NASA-Lewis Chemical Equilibrium Code was recently developed. The modifications were designed to extend the power and convenience of the Code as a tool for performing combustor analysis for MHD systems studies. The effect of the programming details is described from a user point of view

Estuarine frontogenesis

Author Posting. © American Meteorological Society, 2015. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Physical Oceanography 45 (2015): 546–561, doi:10.1175/JPO-D-14-0082.1.Model studies and observations in the Hudson River estuary indicate that frontogenesis occurs as a result of topographic forcing. Bottom fronts form just downstream of lateral constrictions, where the width of the estuary increases in the down-estuary (i.e., seaward) direction. The front forms during the last several hours of the ebb, when the combination of adverse pressure gradient in the expansion and baroclinicity cause a stagnation of near-bottom velocity. Frontogenesis is observed in two dynamical regimes: one in which the front develops at a transition from subcritical to supercritical flow and the other in which the flow is everywhere supercritical. The supercritical front formation appears to be associated with lateral flow separation. Both types of fronts are three-dimensional, with strong lateral gradients along the flanks of the channel. During spring tide conditions, the fronts dissipate during the flood, whereas during neap tides the fronts are advected landward during the flood. The zone of enhanced density gradient initiates frontogenesis at multiple constrictions along the estuary as it propagates landward more than 60 km during several days of neap tides. Frontogenesis and frontal propagation may thus be essential elements of the spring-to-neap transition to stratified conditions in partially mixed estuaries.Support for this research was provided by NSF Grant OCE 0926427.2015-08-0

Sediment transport time scales and trapping efficiency in a tidal river

Author Posting. © American Geophysical Union, 2017. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research: Earth Surface 122 (2017): 2042–2063, doi:10.1002/2017JF004337.Observations and a numerical model are used to characterize sediment transport in the tidal Hudson River. A sediment budget over 11 years including major discharge events indicates the tidal fresh region traps about 40% of the sediment input from the watershed. Sediment input scales with the river discharge cubed, while seaward transport in the tidal river scales linearly, so the tidal river accumulates sediment during the highest discharge events. Sediment pulses associated with discharge events dissipate moving seaward and lag the advection speed of the river by a factor of 1.5 to 3. Idealized model simulations with a range of discharge and settling velocity were used to evaluate the trapping efficiency, transport rate, and mean age of sediment input from the watershed. The seaward transport of suspended sediment scales linearly with discharge but lags the river velocity by a factor that is linear with settling velocity. The lag factor is 30–40 times the settling velocity (mm s−1), so transport speeds vary by orders of magnitude from clay (0.01 mm s−1) to coarse silt (1 mm s−1). Deposition along the tidal river depends strongly on settling velocity, and a simple advection-reaction equation represents the loss due to settling on depositional shoals. The long-term discharge record is used to represent statistically the distribution of transport times, and time scales for settling velocities of 0.1 mm s−1 and 1 mm s−1 range from several months to several years for transport through the tidal river and several years to several decades through the estuary.Hudson River Foundation Grant Number: 004/13A; National Science Foundation Grant Number: 13251362018-05-0

Infrared Thermography to Monitor Natural Ventilation during Storage of Potat

A thermographic imaging system is applied as a climate control component in a big potato box store. Traditional temperature sensors distributed in the boxes give product information, i.e. temperatures and relative air humidity values, only for local spots. A thermographic infrared imaging camera system however is able to record a general view over a comparably wide area of the store to detect local differences of surface temperatures in the storage. The project objective is to improve climate control by application of thermography in a free convective ventilated (FCV) box store for potatoes to reduce high temperature differences, which is a typical problem in such types of stores.It was proved that the FCV principle is working even for huge stores. For stores of that type no cooling or ventilation devices are applied to save energy and finally to protect the environment. Thus, these types of stores are only dependent on ‘natural’ ventilation with ambient (environment) air.Low temperature differences can be controlled by moving the top and bottom dampers, according to the temperature fluctuations, dependent on outside wind velocity, and can be determined by the thermography system. The visibility of the air movements i.e. directions of flow can be seen by temperature changes. This allows controlling of separate grouped numbers of dampers. Airflow direction and velocity of the outside air can therefore better be involved into control strategies. Anyway, the assumed efficiency of the ‘air-throw ventilation strategy’ (‘cellar-effect’) to cool the whole store by simply opening the top dampers only, could not be verified

Microcanonical versus Canonical Analysis of Protein Folding

The microcanonical analysis is shown to be a powerful tool to characterize the protein folding transition and to neatly distinguish between good and bad folders. An off-lattice model with parameter chosen to represent polymers of these two types is used to illustrate this approach. Both canonical and microcanonical ensembles are employed. The required calculations were performed using parallel tempering Monte Carlo simulations. The most revealing features of the folding transition are related to its first-order-like character, namely, the S-bend pattern in the caloric curve, which gives rise to negative microcanonical specific heats, and the bimodality of the energy distribution function at the transition temperatures. Models for a good folder are shown to be quite robust against perturbations in the interaction potential parameters.Comment: 4 pages, 4 figure

Response to channel deepening of the salinity intrusion, estuarine circulation, and stratification in an urbanized estuary

Author Posting. © American Geophysical Union, 2019. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research-Oceans 124(7), (2019): 4784-4802, doi: 10.1029/2019JC015006.Modifications for navigation since the late 1800s have increased channel depth (H) in the lower Hudson River estuary by 10–30%, and at the mouth the depth has more than doubled. Observations along the lower estuary show that both salinity and stratification have increased over the past century. Model results comparing predredging bathymetry from the 1860s with modern conditions indicate an increase in the salinity intrusion of about 30%, which is roughly consistent with the H5/3 scaling expected from theory for salt flux dominated by steady exchange. While modifications including a recent deepening project have been concentrated near the mouth, the changes increase salinity and threaten drinking water supplies more than 100 km landward. The deepening has not changed the responses to river discharge (Qr) of the salinity intrusion (~Qr−1/3) or mean stratification (Qr2/3). Surprisingly, the increase in salinity intrusion with channel deepening results in almost no change in the estuarine circulation. This contrasts sharply with local scaling based on local dynamics of an H2 dependence, but it is consistent with a steady state salt balance that allows scaling of the estuarine circulation based on external forcing factors and is independent of depth. In contrast, the observed and modeled increases in stratification are opposite of expectations from the steady state balance, which could be due to reduction in mixing with loss of shallow subtidal regions. Overall, the mean shift in estuarine parameter space due to channel deepening has been modest compared with the monthly‐to‐seasonal variability due to tides and river discharge.Funding was provided by NSF Coastal SEES (OCE 1325136). Data supporting this study are posted to Zenodo (https://doi.org/10.5281/zenodo.2551285) or are available by contacting the author.2019-12-0