A Parallel Tree code for large Nbody simulation: dynamic load balance and data distribution on CRAY T3D system

N-body algorithms for long-range unscreened interactions like gravity belong to a class of highly irregular problems whose optimal solution is a challenging task for present-day massively parallel computers. In this paper we describe a strategy for optimal memory and work distribution which we have applied to our parallel implementation of the Barnes & Hut (1986) recursive tree scheme on a Cray T3D using the CRAFT programming environment. We have performed a series of tests to find an " optimal data distribution " in the T3D memory, and to identify a strategy for the " Dynamic Load Balance " in order to obtain good performances when running large simulations (more than 10 million particles). The results of tests show that the step duration depends on two main factors: the data locality and the T3D network contention. Increasing data locality we are able to minimize the step duration if the closest bodies (direct interaction) tend to be located in the same PE local memory (contiguous block subdivison, high granularity), whereas the tree properties have a fine grain distribution. In a very large simulation, due to network contention, an unbalanced load arises. To remedy this we have devised an automatic work redistribution mechanism which provided a good Dynamic Load Balance at the price of an insignificant overhead.Comment: 16 pages with 11 figures included, (Latex, elsart.style). Accepted by Computer Physics Communication

Locality and stability of the cascades of two-dimensional turbulence

We investigate and clarify the notion of locality as it pertains to the cascades of two-dimensional turbulence. The mathematical framework underlying our analysis is the infinite system of balance equations that govern the generalized unfused structure functions, first introduced by L'vov and Procaccia. As a point of departure we use a revised version of the system of hypotheses that was proposed by Frisch for three-dimensional turbulence. We show that both the enstrophy cascade and the inverse energy cascade are local in the sense of non-perturbative statistical locality. We also investigate the stability conditions for both cascades. We have shown that statistical stability with respect to forcing applies unconditionally for the inverse energy cascade. For the enstrophy cascade, statistical stability requires large-scale dissipation and a vanishing downscale energy dissipation. A careful discussion of the subtle notion of locality is given at the end of the paper.Comment: v2: 23 pages; 4 figures; minor revisions; resubmitted to Phys. Rev.

Shear-banding in a lyotropic lamellar phase, Part 2: Temporal fluctuations

We analyze the temporal fluctuations of the flow field associated to a shear-induced transition in a lyotropic lamellar phase: the layering transition of the onion texture. In the first part of this work [Salmon et al., submitted to Phys. Rev. E], we have evidenced banded flows at the onset of this shear-induced transition which are well accounted for by the classical picture of shear-banding. In the present paper, we focus on the temporal fluctuations of the flow field recorded in the coexistence domain. These striking dynamics are very slow (100--1000s) and cannot be due to external mechanical noise. Using velocimetry coupled to structural measurements, we show that these fluctuations are due to a motion of the interface separating the two differently sheared bands. Such a motion seems to be governed by the fluctuations of $\sigma^\star$, the local stress at the interface between the two bands. Our results thus provide more evidence for the relevance of the classical mechanical approach of shear-banding even if the mechanism leading to the fluctuations of $\sigma^\star$ remains unclear

Velocity profiles in shear-banding wormlike micelles

Using Dynamic Light Scattering in heterodyne mode, we measure velocity profiles in a much studied system of wormlike micelles (CPCl/NaSal) known to exhibit both shear-banding and stress plateau behavior. Our data provide evidence for the simplest shear-banding scenario, according to which the effective viscosity drop in the system is due to the nucleation and growth of a highly sheared band in the gap, whose thickness linearly increases with the imposed shear rate. We discuss various details of the velocity profiles in all the regions of the flow curve and emphasize on the complex, non-Newtonian nature of the flow in the highly sheared band.Comment: 4 pages, 5 figures, submitted to Phys. Rev. Let

C^{2} formulation of Euler fluid

The Hamiltonian formalism for the continuous media is constructed using the representation of Euler variables in $\mathcal{C}^{2}\times \infty$ phase space.Comment: 8 page

hNuf2 inhibition blocks stable kinetochore–microtubule attachment and induces mitotic cell death in HeLa cells

Identification of proteins that couple kinetochores to spindle microtubules is critical for understanding how accurate chromosome segregation is achieved in mitosis. Here we show that the protein hNuf2 specifically functions at kinetochores for stable microtubule attachment in HeLa cells. When hNuf2 is depleted by RNA interference, spindle formation occurs normally as cells enter mitosis, but kinetochores fail to form their attachments to spindle microtubules and cells block in prometaphase with an active spindle checkpoint. Kinetochores depleted of hNuf2 retain the microtubule motors CENP-E and cytoplasmic dynein, proteins previously implicated in recruiting kinetochore microtubules. Kinetochores also retain detectable levels of the spindle checkpoint proteins Mad2 and BubR1, as expected for activation of the spindle checkpoint by unattached kinetochores. In addition, the cell cycle block produced by hNuf2 depletion induces mitotic cells to undergo cell death. These data highlight a specific role for hNuf2 in kinetochore–microtubule attachment and suggest that hNuf2 is part of a molecular linker between the kinetochore attachment site and tubulin subunits within the lattice of attached plus ends

Shear-banding in a lyotropic lamellar phase, Part 1: Time-averaged velocity profiles

Using velocity profile measurements based on dynamic light scattering and coupled to structural and rheological measurements in a Couette cell, we present evidences for a shear-banding scenario in the shear flow of the onion texture of a lyotropic lamellar phase. Time-averaged measurements clearly show the presence of structural shear-banding in the vicinity of a shear-induced transition, associated to the nucleation and growth of a highly sheared band in the flow. Our experiments also reveal the presence of slip at the walls of the Couette cell. Using a simple mechanical approach, we demonstrate that our data confirms the classical assumption of the shear-banding picture, in which the interface between bands lies at a given stress $\sigma^\star$. We also outline the presence of large temporal fluctuations of the flow field, which are the subject of the second part of this paper [Salmon {\it et al.}, submitted to Phys. Rev. E]

Recent Developments in Understanding Two-dimensional Turbulence and the Nastrom-Gage Spectrum

Two-dimensional turbulence appears to be a more formidable problem than three-dimensional turbulence despite the numerical advantage of working with one less dimension. In the present paper we review recent numerical investigations of the phenomenology of two-dimensional turbulence as well as recent theoretical breakthroughs by various leading researchers. We also review efforts to reconcile the observed energy spectrum of the atmosphere (the spectrum) with the predictions of two-dimensional turbulence and quasi-geostrophic turbulence.Comment: Invited review; accepted by J. Low Temp. Phys.; Proceedings for Warwick Turbulence Symposium Workshop on Universal features in turbulence: from quantum to cosmological scales, 200