Atom Vs Midas

[Darci Carlton]

Thedifferences in atom specification mainly reflect additions that do not affect the process of adapting a Midas scriptfor use in Chimera. However, note that in Chimera, chain IDs are specifieddifferently and mainchain is not accepted as a specifier.A few Midas/MidasPlus commands areunsupported by Chimera.

Structural analysis is conducted based on knowledge in the fields of mechanics, materials science and mathematics to calculate the deformations, internal forces, stresses, reactions, accelerations and stability of the structure.

Since different products have different functions, they will naturally need different analyses to understand the factors that cause its structure to fail. Structural failure can be of 6 different types: yielding, in either ductile or brittle materials, buckling, resonance, fatigue, creep, and erosion or wear.

The classification of different types of structural analyses are most commonly organized based on the type of load applied. This breaks structural analysis into two main categories: one to study structures under static loads, and the other for dynamic loads. Although temperature and vibrations can be considered as loads that affect the structure, these analyses will be discussed in more detail in their respective sections below: thermal analyses and modal analyses, respectively.

Non-linear static analysis focuses on solving for the same load conditions as its linear counterpart, but it accounts for material, geometry and/or boundary nonlinearity. Material nonlinearity refers to the event in which a material exhibits nonlinear behavior as the load increases. Geometry nonlinearity occurs when the direction, distribution and size of a load varies as displacement or rotation increases. Lastly, boundary nonlinearity takes place when lack of linearity between elements or contacts caused by changes in boundary conditions are given consideration.

Non-linear quasi-static analysis is a simplified dynamic analysis method wherein inertial and damping forces are disregarded but load conditions changing over time are used as-is. While in dynamic analysis load changes over time, in this method the behavior of the structure is analyzed under static conditions, setting specific loads at the respective time points.

Non-linear explicit transient analysis is a method used to identify the nonlinear response of a structure to a load that changes over time. Drop, crash and impact analyses are examples of this type of analysis.

Transient response analysis focuses on identifying the behavior of a structure in response to a dynamic load that varies over time. This analysis is carried out through the direct integration of the motion equation.

Fatigue yielding is phenomenon that takes place when a member yields due to the repeated subjection to a load that is less than the yield strength of the member. Although this phenomenon is caused by a constant fluctuation on the load, since the intrinsic value of the load remains constant, static analysis is first performed on the structure. Then, by assessing the values of maximum principal stress, or the signed von-Misses stresses, the amplitude of the stress acting on the structure is found.

A vibration is a mechanical phenomenon wherein oscillations in an object occur about an equilibrium point over time; it can also be defined as a physical value that fluctuates around a certain value. Structural vibration can be categorized as natural or forced vibration.

The natural vibration of a structure is the vibration that occurs in absence of external forces because of the forces contained in the structure only (inertial, damping or elastic forces). This type of vibration occurs at one or more natural frequencies, which are unique dynamic properties of a structure.

In the case that the excitation frequency, caused by forced vibration, matches or is similar enough to one of the natural frequencies of a structure, resonance occurs. Resonance causes the vibration response of the structure to greatly amplify, due to the added combined effect of both natural and forced vibrations.

Therefore, the calculation of the natural frequencies of a structure is very important in the dynamic analysis and design of any structure. The natural frequency of a structure can be found from its mass, damping and stiffness.

The main purpose of normal modal analysis is finding the natural frequencies of a structure in natural vibration. As mentioned earlier, in natural vibration a structure vibrates due only to forces inside the structure and without any external forces acting on it. Assuming there is no damping, infinite motion would occur when the elastic and inertial forces come to an equilibrium. The frequency of such infinite motion is defined as the natural frequency of the structure, and the deformation shape cause by such frequency is denoted as the mode shape. Therefore, normal modal analysis allows to predict resonance beforehand, avoiding the dangerous problems caused by it.

This method of analysis is used only in the frequency domain. The results of a frequency response analysis are calculated by solving a characteristic dynamic equilibrium formula, which is found when a harmonic load acts on a structure. The analysis is basically carried out by direct integration of the motion equation.

Response spectrum analysis is a method used to find the maximum response of a structure under the loads caused by an earthquake. Therefore, this method is generally used in earthquake analysis, and it outputs the maximum displacement and stress values required to design a structure under seismic conditions.

Direct random vibration analysis is mainly based on probability. This method predicts the range in which a response in a structure will occur if a power spectrum density function is applied. The solution to the characteristic dynamic equilibrium formula is found when a harmonic load acts on the structure. In other words, the analysis is carried out again by direct integration of the motion equation.

This temperature difference between an object and its surroundings causes heat, or heat energy, to flow from a high temperature source to a low temperature sink. This phenomenon is called heat transfer, heat flow or heat exchange.

Therefore, heat transfer analysis determines the flow of heat according to temperature differences; it also determines the resulting temperature distribution and temperatures changes. A temperature load, like force or pressure, can be considered in steady-state or transient conditions depending on whether it is affected by time or not.

Thermal deformation is caused by the increased vibration of molecules and atoms in the material due to an increase in heat energy; this causes the molecular bonds to relax, making the material expand. Vice versa, if the heat energy decreases the material contracts. Thermal stress analysis examines the safety of a design in response to these thermal deformations, caused by the thermal loads due to the temperature distribution created by heat transfer.

In steady-state conditions, when an object and its surroundings are at the same temperature, conditions causing heat transfer, the speed of heat transfer and the temperature distribution are uniform and do not depend on time. Non-linear steady-state heat transfer analysis is a method of analyzing heat transfer and temperature distribution in this state. This type of analysis must be used when the material characteristics and boundary conditions set depend on temperature.

If heat transfer occurs, the conditions causing heat transfer, the speed of heat transfer and the temperature distribution will change over time until reaching a steady-state. Non-linear transient heat transfer analysis is used to study the heat transfer and temperature changes according to time in such transitional states.

Computational Fluid Dynamics (CFD) is used to analyze general fluid dynamics, as well as solid and fluid heat transfer. This method is also able to analyze turbulent flow, mass transfer and free surface problems.

Optimization analysis is a method of analysis that produces a design that most effectively uses limited resources to produce maximum performance. There are a disparity of optimization methods, including topology, dimension, shape and bead optimization, the first one being the most commonly used.

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Considerable efforts are currently devoted to the preparation of ultracold neutral atoms in the strongly correlated quantum Hall regime. However, the necessary angular momentum is very large and in experiments with rotating traps this means spinning frequencies extremely near to the deconfinement limit; consequently, the required control on parameters turns out to be too stringent. Here we propose instead to follow a dynamic path starting from the gas initially confined in a rotating ring. The large moment of inertia of the ring-shaped fluid facilitates the access to large angular momenta, corresponding to giant vortex states. The trapping potential is then adiabatically transformed into a harmonic confinement, which brings the interacting atomic gas in the desired quantum-Hall regime. We provide numerical evidence that for a broad range of initial angular frequencies, the giant-vortex state is adiabatically connected to the bosonic ν = 1/2 Laughlin state.

In experiments with rotating atomic gases, particles are usually trapped by a harmonic potential and stirred by time-varying magnetic field or auxiliary laser beams7. In the frame rotating at angular speed Ω = Ωz, the Hamiltonian of a single particle in the harmonic trap of frequencies (ω, ω, ωz ) can be written as

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