arXiv subjects

Abram H. Clark

Publications and source records attributed to Abram H. Clark.

30 records · Page 2Linked to original sources

arXiv2017

Granular Response to Impact: Topology of the Force Networks

Impact of an intruder on granular matter leads to formation of mesoscopic force networks seen particularly clearly in the recent experiments carried out with photoelastic particles, e.g., Clark et al., Phys. Rev. Lett., 114 144502 (2015). These force networks are characterized by complex structure and evolve on fast time scales. While it is known that total photoelastic activity in the granular system is correlated with the acceleration of the intruder, it is not known how the structure of the force network evolves during impact, and if there is a dominant features in the networks that can be used to describe intruder's dynamics. Here, we use topological tools, in particular persistent homology, to describe these features. Persistent homology allows quantification of both structure and time evolution of the resulting force networks. We find that there is a clear correlation of the intruder's dynamics and some of the topological measures implemented. This finding allows us to discuss which properties of the force networks are most important when attempting to describe intruder's dynamics. Regarding temporal evolution of the networks, we are able to define the upper bound on the relevant time scale on which the networks evolve.

cond-mat.soft↗

arXiv2017

Determining the Onset of Hydrodynamic Erosion in Turbulent Flow

We revisit the longstanding question of the onset of sediment transport driven by a turbulent fluid flow via laboratory measurements. We use particle tracking velocimetry to quantify the fluid flow as well as the motion of individual grains. As we increase the flow speed above the transition to sediment transport, we observe that an increasing fraction of grains are transported downstream, although the average downstream velocity of the transported grains remains roughly constant. However, we find that the fraction of mobilized grains does not vanish sharply at a critical flow rate. Additionally, the distribution of the fluctuating velocities of non-transported grains becomes broader with heavier tails, meaning that unambiguously separating mobile and static grains is not possible. As an alternative approach, we quantify the statistics of grain velocities by using a mixture model consisting of two forms for the grain velocities: a decaying-exponential tail, which represents grains transported downstream, and a peaked distribution centered at zero velocity, which represents grains that fluctuate due to the turbulent flow but remain in place. Our results suggest that more sophisticated statistical measures may be required to quantify grain motion near the onset of sediment transport, particularly in the presence of turbulence.

physics.flu-dyn↗

arXiv2017

The role of grain dynamics in determining the onset of sediment transport

Sediment transport occurs when the nondimensional fluid shear stress $Θ$ at the bed surface exceeds a minimum value $Θ_c$. A large collection of data, known as the Shields curve, shows that $Θ_c$ is primarily a function of the shear Reynolds number ${\rm{Re}}_*$. It is commonly assumed that $Θ>Θ_c({\rm{Re}}_*)$ occurs when the ${\rm Re}_*$-dependent fluid forces are too large to maintain static equilibrium for a typical surface grain. A complimentary approach, which remains relatively unexplored, is to identify $Θ_c({\rm{Re}}_*)$ as the applied shear stress at which grains cannot stop moving. With respect to grain dynamics, ${\rm{Re}}_*$ can be viewed as the viscous time scale for a grain to equilibrate to the fluid flow divided by the typical time for the fluid force to accelerate a grain over the characteristic bed roughness. We performed simulations of granular beds sheared by a model fluid, varying only these two time scales. We find that the critical Shields number $Θ_c({\rm Re}_*)$ obtained from the model mimics the Shields curve and is insensitive to the grain properties, the model fluid flow, and the form of the drag law. Quantitative discrepancies between the model results and the Shields curve are consistent with previous calculations of lift forces at varying ${\rm Re}_*$. Grains at low ${\rm Re}_*$ find more stable configurations than those at high ${\rm{Re}}_*$ due to differences in the grain reorganization dynamics. Thus, instead of focusing on mechanical equilibrium of a typical grain at the bed surface, $Θ_c({\rm{Re}}_*)$ may be better described by the stress at which mobile grains cannot find a stable configuration and stop moving.

cond-mat.soft↗

arXiv2017

Packing in Protein Cores

Proteins are biological polymers that underlie all cellular functions. The first high-resolution protein structures were determined by x-ray crystallography in the 1960s. Since then, there has been continued interest in understanding and predicting protein structure and stability. It is well-established that a large contribution to protein stability originates from the sequestration from solvent of hydrophobic residues in the protein core. How are such hydrophobic residues arranged in the core? And how can one best model the packing of these residues? Here we show that to properly model the packing of residues in protein cores it is essential that amino acids are represented by appropriately calibrated atom sizes, and that hydrogen atoms are explicitly included. We show that protein cores possess a packing fraction of $ϕ\approx 0.56$, which is significantly less than the typically quoted value of 0.74 obtained using the extended atom representation. We also compare the results for the packing of amino acids in protein cores to results obtained for jammed packings from disrete element simulations composed of spheres, elongated particles, and particles with bumpy surfaces. We show that amino acids in protein cores pack as densely as disordered jammed packings of particles with similar values for the aspect ratio and bumpiness as found for amino acids. Knowing the structural properties of protein cores is of both fundamental and practical importance. Practically, it enables the assessment of changes in the structure and stability of proteins arising from amino acid mutations (such as those identified as a result of the massive human genome sequencing efforts) and the design of new folded, stable proteins and protein-protein interactions with tunable specificity and affinity.

cond-mat.soft↗

arXiv2016

Granular Impact: A Grain-scale Approach

This work summarizes a series of studies on two-dimensional granular impact, where an intruding object strikes a granular material at high speed. Many previous studies on granular impact have used a macroscopic force law, which is dominated by an inertial drag term proportional to the intruder velocity squared. The primary focus here is on the microscopic force response of the granular material, and how the grain-scale effects give rise to this inertial drag term. We show that the inertial drag arises from intermittent collisions with force-chain-like structures. We construct a simple collisional model to explain the inertial drag, as well as off-axis instability and rotations. Finally, we show how the granular response changes when the intruder speed approaches $d/t_c$, leading to a failure of the inertial drag description in this regime. Here, $d$ is the mean particle diameter and $t_c$ the characteristic momentum-transfer time between two grains.

cond-mat.soft↗

arXiv2016

Steady Flow Dynamics during Granular Impact

We study experimentally and computationally the dynamics of granular flow during impacts, where intruders strike a collection of disks from above. In the regime where granular force dynamics are much more rapid than the intruder motion, we find that the particle flow near the intruder is proportional to the instantaneous intruder speed; it is essentially constant when normalized by that speed. The granular flow is nearly divergence-free and remains in balance with the intruder, despite the latter's rapid deceleration. Simulations indicate that this observation is insensitive to grain properties, which can be explained by the separation of time scales between intergrain force dynamics and intruder dynamics. Assuming there is a comparable separation of time scales, we expect our results are applicable to a broad class of dynamic or transient granular flows. Our results suggest that descriptions of static-in-time granular flows might be extended or modified to describe these dynamic flows. Additionally, we find that accurate grain-grain interactions are not necessary to correctly capture the granular flow in this regime.

cond-mat.soft↗

arXiv2015

Onset and cessation of motion in hydrodynamically sheared granular beds

We performed molecular dynamics simulations of granular beds driven by a model hydrodynamic shear flow to elucidate general grain-scale mechanisms that determine the onset and cessation of sediment transport. By varying the Shields number (the nondimensional shear stress at the top of the bed) and particle Reynolds number (the ratio of particle inertia to viscous damping), we explore how variations of the fluid flow rate, particle inertia, and fluid viscosity affect the onset and cessation of bed motion. For low to moderate particle Reynolds numbers, a critical boundary separates mobile and static states. Transition times between these states diverge as this boundary is approached both from above and below. At high particle Reynolds number, inertial effects become dominant, and particle motion can be sustained well below flow rates at which mobilization of a static bed occurs. We also find that the onset of bed motion (for both low and high particle Reynolds numbers) is described by Weibullian weakest-link statistics, and thus is crucially dependent on the packing structure of the granular bed, even deep beneath the surface.

cond-mat.soft↗

arXiv2015

Nonlinear Force Propagation during Granular Impact

We experimentally study nonlinear force propagation into granular material during impact from an intruder, and we explain our observations in terms of the nonlinear grain-scale force relation. Using high-speed video and photoelastic particles, we determine the speed and spatial structure of the force response just after impact. We show that these quantities depend on a dimensionless parameter, $M'=t_c v_0/d$, where $v_0$ is the intruder speed at impact, $d$ is the particle diameter, and $t_c$ is the collision time for a pair of grains impacting at relative speed $v_0$. The experiments access a large range of $M'$ by using particles of three different materials. When $M' \ll 1$, force propagation is chain-like with a speed, $v_f$, satisfying $v_f \propto d/t_c$. For larger $M'$, the force response becomes spatially dense and the force propagation speed departs from $v_f\propto d/t_c$, corresponding to collective stiffening of a strongly compressed packing of grains.

cond-mat.soft↗

arXiv2013

Collisional Model for Granular Impact Dynamics

When an intruder strikes a granular material from above, the grains exert a stopping force which decelerates and stops the intruder. Many previous studies have used a macroscopic force law, including a drag force which is quadratic in velocity, to characterize the decelerating force on the intruder. However, the microscopic origins of the force law terms are still a subject of debate. Here, drawing from previous experiments with photoelastic particles, we present a model which describes the velocity-squared force in terms of repeated collisions with clusters of grains. From our high speed photoelastic data, we infer that `clusters' correspond to segments of the strong force network that are excited by the advancing intruder. The model predicts a scaling relation for the velocity-squared drag force that accounts for the intruder shape. Additionally, we show that the collisional model predicts an instability to rotations, which depends on the intruder shape. To test this model, we perform a comprehensive experimental study of the dynamics of two-dimensional granular impacts on beds of photoelastic disks, with different profiles for the leading edge of the intruder. We particularly focus on a simple and useful case for testing shape effects by using triangular-nosed intruders. We show that the collisional model effectively captures the dynamics of intruder deceleration and rotation; i.e., these two dynamical effects can be described as two different manifestations of the same grain-scale physical processes.

cond-mat.soft↗

arXiv2013

Jet-induced 2-D crater formation with horizontal symmetry breaking

We investigate the formation of a crater in a 2-D bed of granular material by a jet of impinging gas, motivated by the problem of a retrograde rocket landing on a planetary surface. The crater is characterized in terms of depth and shape as it evolves, as well as by the horizontal position of the bottom of the crater. The crater tends to grow logarithmically in time, a result which is common in related experiments. We also observe a horizontal symmetry breaking at certain well-defined conditions which, as we will demonstrate, could be of considerable practical concern for lunar or planetary landers. We present data on the evolution of these asymmetric states and attempt to give insights into the mechanism behind the symmetry-breaking bifurcation.

cond-mat.soft↗

arXiv2013

Granular Impact Model as an Energy-Depth Relation

Velocity-squared drag forces are common in describing an object moving through a granular material. The resulting force law is a nonlinear differential equation, and closed-form solutions of the dynamics are typically obtained by making simplifying assumptions. Here, we consider a generalized version of such a force law which has been used in many studies of granular impact. We show that recasting the force law into an equation for the kinetic energy versus depth, K(z), yields a linear differential equation, and thus general closed-form solutions for the velocity versus depth. This approach also has several advantages in fitting such models to experimental data, which we demonstrate by applying it to data from 2D impact experiments. We also present new experimental results for this model, including shape and depth dependence of the velocity-squared drag force.

cond-mat.soft↗

arXiv2012

Granular Impact Dynamics: Acoustics and Fluctuations

In the corresponding fluid dynamics video, created for the APS DFD 2012 Gallery of Fluid Motion, we show high-speed videos of 2D granular impact experiments, where an intruder strikes a collection of bidisperse photoelastic disks from above. We discuss the force beneath the intruder, which is strongly fluctuating in space and time. These fluctuations correspond to acoustic pulses which propagate into the medium. Analysis shows that this process, in our experiments, is dominated by collisions with grain clusters. The energy from these collisions is carried into the granular medium along networks of grains, where is it dissipated.

physics.flu-dyn↗