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Nov 6

High-Accuracy Semi-Analytic Mode Functions, Ultraviolet Regularity, and Particle Creation in the Hybrid Approach to mLQC-I

We construct high-accuracy semi-analytic mode functions for scalar cosmological perturbations in mLQC-I within the hybrid approach to study ultraviolet regularity and gravitational particle creation. The evolution comprises an asymptotic pre-de Sitter branch, a pre-inflationary region containing the quantum bounce, and inflation. In the intermediate region, we construct the complete third-order uniform asymptotic solution and introduce adaptive defect correction. The third-order approximation achieves sub-percent complex-mode accuracy for representative higher-wavenumber modes; defect-corrected solutions agree with numerical evolution at the 0.00001% level over the tested low-wavenumber range. Retaining amplitudes and phases provides a controlled basis for future precision calculations of primordial power spectra and non-Gaussian correlations. We compare the de Sitter vacuum selected in the remote contracting branch with a fourth-order adiabatic state imposed at the bounce. Finite-wavenumber matching and the strict ultraviolet limit require different asymptotic treatments: extrapolating the leading connection to infinite wavenumber yields a spurious constant negative-frequency coefficient and an apparent ultraviolet divergence. Instead, the large-wavenumber de Sitter mode agrees with the fourth-order adiabatic expansion through the order required for energy-momentum tensor renormalization, and smooth exact evolution preserves this ultraviolet structure. Finite and intermediate modes can nevertheless undergo nonadiabatic Bogoliubov mixing and particle creation. Finite-mode particle production thus coexists with ultraviolet regularity. The ultraviolet argument also extends to the dressed-metric approach in its corresponding large-wavenumber regime, while quantitative mode functions must be recalculated using its effective mass.

  • 3 authors
·
Oct 6

Steady-State Phase Transition States and Large-Time Asymptotics for the Cauchy Problem of Compressible Navier-Stokes Equations with van der Waals Equation of State

We study the Cauchy problem for the one-dimensional isothermal compressible Navier--Stokes system with the van der Waals equation of state, and analyze the well-posedness and asymptotic stability of steady-state phase-transition solutions at subcritical temperatures. Working in Lagrangian coordinates, we use variational techniques to construct piecewise smooth steady-state solutions corresponding to two-phase equilibrium states under finite-mass perturbations. Introducing artificial-viscosity regularization, we first establish existence of the global minimizer of the regularized variational problem, unique within each fixed symmetry class; passing to the vanishing artificial-viscosity limit then yields a physically admissible steady-state solution with two phase interfaces. For initial perturbations that are small with respect to energy, piecewise-gradient, total-variation, and integral norms but may exhibit large pointwise jumps across phase boundaries, we derive uniform a priori bounds for weak solutions near the two-phase equilibrium profile. We further prove that these global weak solutions converge to the steady-state two-phase equilibrium in L^infty(R) as ttoinfty, thereby characterizing their large-time asymptotic behavior. Physically, finite mass perturbations break the uniqueness of the uniform steady state and generate infinitely many piecewise constant two-phase equilibria satisfying the Maxwell equal-area rule. Artificial viscosity acts as a selection principle that singles out the physically relevant two-interface steady-state configuration, and this two-phase equilibrium is asymptotically stable under small integral perturbations that allow large-amplitude discontinuities at phase interfaces.

  • 4 authors
·
Oct 4

A Kinetic Concentration criterion for Large-data Boltzmann Dynamics

We establish a conditional theory of genuinely non-perturbative global dynamics for the cutoff Boltzmann equation with hard potentials on the three-dimensional torus. We prove that any global mild solution satisfying \[ \sup_{t\ge0}\int_{\mathbb R^3}W(v)\sup_{x\in\mathbb T^3}F(t,x,v)\,dv<\infty, \] for a suitable stretched-exponential weight \(W\), enjoys uniform weighted \(L^\infty\) control, is unique in the dissipative mild class, and converges exponentially to the global Maxwellian. In particular, these conclusions hold for arbitrary-amplitude solutions admitting a uniform stretched-exponential velocity upper bound. The key mechanism is a *tail-to-coercivity principle*: uniform velocity-tail control generates positive lower bounds for the local density and nonlinear collision frequency, without imposing macroscopic coercivity a priori. A double-Duhamel positivity argument also generates a Gaussian lower bound at arbitrarily short positive times, allowing initial data with local vacuum. We establish a polynomially weighted counterpart under an additional spatially uniform lower velocity profile, obtaining analogous weighted \(L^\infty\) bounds, uniqueness, and exponential relaxation. Our results provide a low-regularity alternative to conditional theories requiring smoothness and pointwise macroscopic bounds. They reveal how a single velocity-tail condition controls large-data Boltzmann dynamics and suggest a route toward problems with physical boundary conditions.

  • 5 authors
·
Oct 7

Global strong solutions to the 1D full compressible Navier--Stokes equations with temperature-dependent coefficients and vacuum

We study the initial--boundary value problem for the one-dimensional full compressible Navier--Stokes system whose viscosity and heat conductivity are given by μ(θ)=μθ^α and κ(θ)=κθ^β, respectively. The initial density is nonnegative and is allowed to vanish. For α>2 and β>2α+4, we prove the existence of a global strong solution for arbitrarily large compatible H^2 data, provided that the prescribed boundary temperature is sufficiently high relative to their size. No velocity or temperature perturbation is required to shrink as the boundary temperature tends to infinity. A shifted initial-layer weight and an exact symmetrization of the two material-derivative equations separate the fast thermal mode from the momentum mode. The resulting estimates are uniform with respect to the positive lower bound used in the approximation and therefore survive the limit to genuine vacuum. The proof further combines a relative-entropy identity centered at the conserved mean density, the physical effective viscous flux, a Zlotnik-type estimate along particle trajectories, and finite-time transport estimates for the density derivatives. The density remains uniformly bounded and the temperature stays uniformly comparable with the prescribed boundary temperature. After the initial layer we establish vacuum-compatible exponential relaxation: the density converges to its conserved mean in every finite L^p, the velocity and temperature perturbation decay in H^1, and the weighted material-derivative energy decays at rate cbarθ^{1-α}.

  • 3 authors
·
Oct 3

The Rayleigh-Boltzmann equation with shear deformations in the hyperbolic-dominated regime

In this paper we consider a particular class of solutions of the Rayleigh-Boltzmann equation, known in the nonlinear setting as homoenergetic solutions, which have the form gleft( x,v,t right) =fleft( v-Lleft( tright)x,tright) where the matrix L(t) describes a shear flow deformation. We began this analysis in [22] where we rigorously proved the existence of a stationary non-equilibrium solution and established the different behaviour of the solutions for small and large values of the shear parameter, for cut-off collision kernels with homogeneity parameter 0leq gamma <1, including Maxwell molecules and hard potentials. In this paper, we concentrate in the case where the deformation term dominates the collision term for large times (hyperbolic-dominated regime). This occurs for collision kernels with gamma < 0 and in particular we focus on gamma in (-1,0). In such a hyperbolic-dominated regime, it appears challenging to provide a clear description of the long-term asymptotics of the solutions. Here we present a formal analysis of the long-time asymptotics for the distribution of velocities and provide the explicit form for the asymptotic profile. Additionally, we discuss the different asymptotic behaviour expected in the case of homogeneity gamma < -1. Furthermore, we provide a probabilistic interpretation describing a stochastic process consisting in a combination of collisions and shear flows. The tagged particle velocity {v(t)}_{tgeq 0} is a Markov process that arises from the combination of free flights in a shear flow along with random jumps caused by collisions.

  • 3 authors
·
Jun 18, 2025

Parabolic-elliptic and indirect-direct simplifications in chemotaxis systems driven by indirect signalling

Singular limits for the following indirect signalling chemotaxis system align* \left\{ array{lllllll} \partial_t n = \Delta n - \nabla \cdot (n \nabla c ) & in \Omega\times(0,\infty) , \varepsilon \partial_t c = \Delta c - c + w & in \Omega\times(0,\infty), \varepsilon \partial_t w = \tau \Delta w - w + n & in \Omega\times (0,\infty), \partial_\nu n = \partial_\nu c = \partial_\nu w = 0, &on \partial\Omega\times (0,\infty) %(n,c,w)_{t=0} = (n_0,c_0,w_0) & on \Omega, array \right. align* are investigated. More precisely, we study parabolic-elliptic simplification, or PES, varepsilonto 0^+ with fixed tau>0 up to the critical dimension N=4, and indirect-direct simplification, or IDS, (varepsilon,tau)to (0^+,0^+) up to the critical dimension N=2. These are relevant in biological situations where the signalling process is on a much faster time scale compared to the species diffusion and all interactions. Showing singular limits in critical dimensions is challenging. To deal with the PES, we carefully combine the entropy function, an Adam-type inequality, the regularisation of slow evolution, and an energy equation method to obtain strong convergence in representative spaces. For the IDS, a bootstrap argument concerning the L^p-energy function is devised, which allows us to obtain suitable uniform bounds for the singular limits. Moreover, in both scenarios, we also present the convergence rates, where the effect of the initial layer and the convergence to the critical manifold are also revealed.

  • 4 authors
·
Aug 2, 2025

Chebyshev-Exact Acceleration under Hessian Variation, II: Computer-Assisted Variational Lower Bound

We study two-step recurrences with positive step sizes and nonnegative momentum coefficients whose terminal residual is the Chebyshev minimax polynomial on a prescribed spectral interval [μ,L]. These recurrences have the same terminal error on a fixed quadratic, but their first-order responses to stepwise Hessian perturbations can differ. We prove that the sine-Jacobi recurrence of Part I is asymptotically optimal for this response norm within a factor of 1.000004, uniformly over 0<μ<L. Every terminal-exact recurrence satisfies A_Nge(2c_{cert}-o(1))N^{3/2}ε_N^star/(L-μ) with c_{cert}>1.14268353624, whereas the sine-Jacobi recurrence attains the constant 2c_{sin} with c_{sin}<1.14269218. The proof reduces the gain to the diagonal energy of a Jacobi Green matrix. A centering lift represents this matrix by an exponential kernel; packing its diagonal into a density on the line preserves the energy and controls the change in the Birman-Schwinger spectrum. A calibrated identity gives a lower bound using the ground parameter and one Fredholm determinant. Two further determinants and a trace observation improve the bound through a pointwise inequality on an explicit compact state region. One rational certificate verifies this inequality by interval arithmetic. A second certificate constructs a density satisfying the selected observations and both normalizations with energy below the sine value. Finally, no C^1 function of finitely many observations of the specified kinds gives a locally sharp lower bound at the sine density.

  • 2 authors
·
Oct 5

On the matrices in B-spline collocation methods for Riesz fractional equations and their spectral properties

In this work, we focus on a fractional differential equation in Riesz form discretized by a polynomial B-spline collocation method. For an arbitrary polynomial degree p, we show that the resulting coefficient matrices possess a Toeplitz-like structure. We investigate their spectral properties via their symbol and we prove that, like for second order differential problems, also in this case the given matrices are ill-conditioned both in the low and high frequencies for large p. More precisely, in the fractional scenario the symbol has a single zero at 0 of order α, with α the fractional derivative order that ranges from 1 to 2, and it presents an exponential decay to zero at π for increasing p that becomes faster as α approaches 1. This translates in a mitigated conditioning in the low frequencies and in a deterioration in the high frequencies when compared to second order problems. Furthermore, the derivation of the symbol reveals another similarity of our problem with a classical diffusion problem. Since the entries of the coefficient matrices are defined as evaluations of fractional derivatives of the B-spline basis at the collocation points, we are able to express the central entries of the coefficient matrix as inner products of two fractional derivatives of cardinal B-splines. Finally, we perform a numerical study of the approximation behavior of polynomial B-spline collocation. This study suggests that, in line with non-fractional diffusion problems, the approximation order for smooth solutions in the fractional case is p+2-α for even p, and p+1-α for odd p.

  • 4 authors
·
Jun 28, 2021

An efficient Asymptotic-Preserving scheme for the Boltzmann mixture with disparate mass

In this paper, we develop and implement an efficient asymptotic-preserving (AP) scheme to solve the gas mixture of Boltzmann equations under the disparate mass scaling relevant to the so-called "epochal relaxation" phenomenon. The disparity in molecular masses, ranging across several orders of magnitude, leads to significant challenges in both the evaluation of collision operators and the designing of time-stepping schemes to capture the multi-scale nature of the dynamics. A direct implementation of the spectral method faces prohibitive computational costs as the mass ratio increases due to the need to resolve vastly different thermal velocities. Unlike [I. M. Gamba, S. Jin, and L. Liu, Commun. Math. Sci., 17 (2019), pp. 1257-1289], we propose an alternative approach based on proper truncation of asymptotic expansions of the collision operators, which significantly reduces the computational complexity and works well for small varepsilon. By incorporating the separation of three time scales in the model's relaxation process [P. Degond and B. Lucquin-Desreux, Math. Models Methods Appl. Sci., 6 (1996), pp. 405-436], we design an AP scheme that captures the specific dynamics of the disparate mass model while maintaining computational efficiency. Numerical experiments demonstrate the effectiveness of the proposed scheme in handling large mass ratios of heavy and light species, as well as capturing the epochal relaxation phenomenon.

  • 3 authors
·
Nov 20, 2024

Plunge bounds for Fourier concentration operators: geometry, smoothing, and wave packets

We prove a single-logarithm bound for the eigenvalues in the plunge region of Fourier concentration operators, removing the extra logarithmic factor in the Kulikov--Dam Larsen bound for two general admissible sets throughout each fixed exponential window. For bounded spatial and frequency sets A,BsubsetR^d of positive measure with finite upper codimension-one Minkowski boundary content, the number Λ_varepsilon(cA,B) of eigenvalues in (varepsilon,1-varepsilon) satisfies Λ_varepsilon(cA,B)le C(d,A,B,β)c^{d-1}D(1+log_+(c/D)), where D=log(1/(varepsilon(1-varepsilon))), for every fixed β>0, cge2, 0<varepsilon<1/2, and Dleβc, with log_+t=max(0,log t). The argument uses positive band-limited smoothing and requires no symmetry, convexity, or connectedness. In dimension two, the corresponding exponential-window estimate has a constant uniform in the window parameter. We also determine the optimal coordinate-Lipschitz constant d-1 for recursive decompositions of balls and standard simplices in every dimension, and obtain box-frequency estimates with explicit geometric constants. For C^1 convex bodies in three dimensions, the optimal infimum of recursive coordinate slopes is 2. Uniform real-order Bessel estimates give independent disk and ball bounds at every spectral threshold, including an explicit deep-tail term. For smooth strictly convex planar frequency bodies with positive curvature, we prove correlation estimates for aligned Gaussian packets at arbitrary relative scales and quantitative lower bounds on the cost of estimating spatial blocks separately. Together these results connect the global spectral bound with sharp geometric constructions and the cancellation retained by grouping boundary interactions.

  • 1 authors
·
Oct 6

Well-Posedness of a Coupled Brinkman--Biofilm--Nutrient System with Volume-Fraction Constraints

We investigate a coupled system of partial differential equations modeling the interaction between Brinkman flow, biofilm evolution, and nutrient transport in a porous medium. The model captures the mutual influence between the fluid velocity and the biofilm through drag and diffusion coefficients that depend on the local biofilm volume fraction. A hard constraint on the admissible range of the biofilm fraction is incorporated through the subdifferential of an indicator functional, which leads naturally to an evolution variational inequality formulation for the biofilm dynamics. Assuming standard coercivity, ellipticity, and growth conditions on the model coefficients and reaction terms, we prove the global-in-time existence of weak solutions. The analysis relies on a decomposition of the system into three interconnected subproblems: the Brinkman equation with a fixed biofilm profile, the constrained biofilm evolution treated through maximal monotone operator theory, and the nutrient equation viewed as a semilinear parabolic problem. These components are then coupled through a Leray--Schauder type fixed-point argument, with the passage to the limit justified by Aubin--Lions and Simon compactness results. We further establish the nonnegativity of the nutrient concentration under a natural quasi-positivity assumption on the reaction term. Finally, we provide conditional uniqueness results for weak solutions in two spatial dimensions under additional smallness assumptions.

  • 2 authors
·
Jun 30

AutoDiffusion: Training-Free Optimization of Time Steps and Architectures for Automated Diffusion Model Acceleration

Diffusion models are emerging expressive generative models, in which a large number of time steps (inference steps) are required for a single image generation. To accelerate such tedious process, reducing steps uniformly is considered as an undisputed principle of diffusion models. We consider that such a uniform assumption is not the optimal solution in practice; i.e., we can find different optimal time steps for different models. Therefore, we propose to search the optimal time steps sequence and compressed model architecture in a unified framework to achieve effective image generation for diffusion models without any further training. Specifically, we first design a unified search space that consists of all possible time steps and various architectures. Then, a two stage evolutionary algorithm is introduced to find the optimal solution in the designed search space. To further accelerate the search process, we employ FID score between generated and real samples to estimate the performance of the sampled examples. As a result, the proposed method is (i).training-free, obtaining the optimal time steps and model architecture without any training process; (ii). orthogonal to most advanced diffusion samplers and can be integrated to gain better sample quality. (iii). generalized, where the searched time steps and architectures can be directly applied on different diffusion models with the same guidance scale. Experimental results show that our method achieves excellent performance by using only a few time steps, e.g. 17.86 FID score on ImageNet 64 times 64 with only four steps, compared to 138.66 with DDIM. The code is available at https://github.com/lilijiangg/AutoDiffusion.

  • 10 authors
·
Sep 19, 2023

The Asymptotic Form of Non-Global Logarithms, Black Disc Saturation, and Gluonic Deserts

We develop an asymptotic perturbation theory for the large logarithmic behavior of the non-linear integro-differential equation describing the soft correlations of QCD jet measurements, the Banfi-Marchesini-Smye (BMS) equation. This equation captures the late-time evolution of radiating color dipoles after a hard collision. This allows us to prove that at large values of the control variable (the non-global logarithm, a function of the infra-red energy scales associated with distinct hard jets in an event), the distribution has a gaussian tail. We compute the decay width analytically, giving a closed form expression, and find it to be jet geometry independent, up to the number of legs of the dipole in the active jet. Enabling the asymptotic expansion is the correct perturbative seed, where we perturb around an anzats encoding formally no real emissions, an intuition motivated by the buffer region found in jet dynamics. This must be supplemented with the correct application of the BFKL approximation to the BMS equation in collinear limits. Comparing to the asymptotics of the conformally related evolution equation encountered in small-x physics, the Balitisky-Kovchegov (BK) equation, we find that the asymptotic form of the non-global logarithms directly maps to the black-disc unitarity limit of the BK equation, despite the contrasting physical pictures. Indeed, we recover the equations of saturation physics in the final state dynamics of QCD.

  • 1 authors
·
Jan 10, 2017

Stability analysis of the Lane--Emden equation of index n=5 describing polytropic gas spheres

We study the Lane--Emden equation of index n=5, the critical polytropic case separating finite-radius from infinite-radius self-gravitating equilibria. The scaling family θ_λ(ξ)=λ^{1/2}θ(λξ) generates a neutral mode ϕ_0=tfrac12θ+ξθ' about the Schuster profile. Schuster's transformation and a logarithmic variable reduce the equation to the autonomous Hamiltonian system ddotν=tfrac14(ν-ν^5) with a first integral. Besides the Schuster (separatrix) and Srivastava solutions, every orbit crossing ν=0 is given in closed form by a Weierstrass wp-function, and the closed forms agree with direct numerical integration to about 10^{-12}. Up to scaling and sign, the Schuster solution is the only solution regular at the center, and it separates positive solutions from solutions with infinitely many zeros. In homology-invariant variables the singular solution θ=(2ξ)^{-1/2} is a center exactly at n=5, where its stability changes. For a distance-varying Emden--Fowler system with a shifted equilibrium we prove that at n=5 the unique equilibrium is linearly and nonlinearly unstable. Finally, the linearization about the Schuster profile is the Schrödinger operator L=-Δ_r-5θ_S^4 on L^2((0,infty),ξ^2dξ). Its Friedrichs extension has essential spectrum [0,infty), a threshold resonance at 0 carried by the non-normalizable scaling mode, and exactly one negative eigenvalue, λ_0approx-1.21, so the Schuster profile is a saddle point of the associated energy functional.

  • 2 authors
·
Oct 18

Singular Contour Dynamics and Paradifferential Reduction

We develop a direct paradifferential approach to nonlinear graph integral operators arising in contour dynamics. The main methodological result is an abstract structure-preserving paralinearization theorem, valid in arbitrary dimension, for a class of homogeneous kernels whose nonlinear dependence on the graph is expressed through normalized finite differences. The theorem covers both critical principal-value kernels and subcritical locally integrable kernels, gives explicit formulas for the principal symbols, and separates the finite-order symbolic contribution generated by the homogeneous singularity from order-zero far-field terms and arbitrarily smoothing remainders. A structural feature of the reduction is the cancellation of the intermediate symbolic order; at the critical endpoint the construction also preserves the exact skew-adjoint structure of the original singular integral. As a main application, we consider the three-dimensional two-phase free-boundary Euler equations with constant interfacial background vorticity. We first derive an autonomous contour-dynamics equation in canonical surface variables and then apply the abstract theorem directly to the singular integral operators generated by the Birkhoff--Rott formulation. This yields the complete paradifferential structure of the system without taking the Dirichlet--Neumann reduction as a starting point. After introducing an Alinhac good unknown and diagonalizing the resulting system, we obtain local well-posedness for small Sobolev perturbations in the stable Kelvin--Rayleigh--Taylor regime, uniformly on compact subsets of the stable parameter set.

  • 3 authors
·
Oct 1

Semigroup Solutions for A Multilayered Filtration System

We investigate solutions to a coupled system of partial differential equations that describe a multilayered filtration system. Namely, we study the interaction of a viscous incompressible flow with bulk poroelasticity, via a poroelastic interface. The configuration consists of two 3D toroidal subdomains connected via a plate interface, which permits elastic deformation and perfusive fluid dynamics. The governing dynamics comprise Stokes equations in the bulk fluid region, Biot's equations in the bulk poroelastic region, and the recent poroplate of Mikelić at the interface. Coupling occurs on the top and lower surfaces of the plate, and involves conservation of mass, stress balance, and a certain slip condition for the fluid free-flow. We seek strong (and mild) solutions in the Hilbert space framework via the Lumer-Phillips theorem. The resolvent analysis employs a nonstandard mixed variational formulation which captures the complex, multi-physics coupling at the interface. We explicitly characterize the infinitesimal generator associated to the linear Cauchy problem and establish the generation of a C_0-semigroup on a suitably chosen finite-energy space. With the semigroup in hand, we may treat elastic nonlinearities for plate displacements through perturbation theory. These result parallel those for Biot-Stokes filtration systems, and complement the recently established weak solution theory for multilayer filtrations. The agency of the semigroup straightforwardly admits structural (plate) nonlinearity into the dynamics. Future stability and regularity analyses for multilayer filtrations are also made possible by these results, as well as a comparison of spectral and regularity properties between filtration configurations, and the elucidation of the mitigating poroplate dynamics as possibly regularizing and stabilizing.

  • 3 authors
·
Jan 31

Geometric effects on the persistence of patch structures for 2D Euler equations in simply-connected bounded domains

We first prove a rigidity result for uniformly rotating vortex patch solutions to Euler equations in bounded simply-connected planar domains. Namely, if a bounded simply-connected domain with real-analytic boundary contains a nontrivial vortex patch that remains strictly inside the domain while undergoing a uniform rigid rotation, then the ambient domain must be a disc centered at the rotation center. The proof combines the rotating-frame formulation with harmonic unique continuation and the generalized Schwarz's reflection principle across analytic boundary arcs. These tools imply that, unless the outer domain is rotationally invariant, the velocity must vanish in an open region surrounding the patch, contradicting the nonzero circulation generated by the patch. In the same spirit, we show that only circular domains possess a circular point vortex orbit. As a second result, we construct quasi-periodic vortex patch solutions to the Euler equations in domains that are small perturbations of the unit disc D. The amplitudes of the solutions are linked to the size of the domain deformation, allowing the classical Rankine vortices bcdotD, bin(0,1), to be regarded as equilibrium states. Our analysis is perturbative with respect to the construction developed in the undeformed case, and the resulting quasi-periodic solutions exist for most values of the inner radius b. This provides the first construction of quasi-periodic vortex patch solutions to the Euler equations in non-radial domains. Moreover, combined with the rigidity result established above, this shows that, in the periodic case, these solutions cannot arise from a purely rigid rotation.

  • 1 authors
·
Oct 5

Synchrony and Oscillatory Dynamics for a 2-D PDE-ODE Model of Diffusion-Sensing with Small Signaling Compartments

We analyze a class of cell-bulk coupled PDE-ODE models, motivated by quorum and diffusion sensing phenomena in microbial systems, that characterize communication between localized spatially segregated dynamically active signaling compartments that have a permeable boundary. Each cell secretes a signaling chemical into the bulk region at a constant rate and receives a feedback of the bulk chemical from the entire collection of cells. This global feedback, which activates signaling pathways within the cells, modifies the intracellular dynamics according to the external environment. The cell secretion and global feedback are regulated by permeability parameters across the cell membrane. For arbitrary reaction-kinetics within each cell, the method of matched asymptotic expansions is used in the limit of small cell radius to construct steady-state solutions of the PDE-ODE model, and to derive a globally coupled nonlinear matrix eigenvalue problem (GCEP) that characterizes the linear stability properties of the steady-states. In the limit of large bulk diffusivity an asymptotic analysis of the PDE-ODE model leads to a limiting ODE system for the spatial average of the concentration in the bulk region that is coupled to the intracellular dynamics within the cells. Results from the linear stability theory and ODE dynamics are illustrated for Sel'kov reaction-kinetics, where the kinetic parameters are chosen so that each cell is quiescent when uncoupled from the bulk medium. For various specific spatial configurations of cells, the linear stability theory is used to construct phase diagrams in parameter space characterizing where a switch-like emergence of intracellular oscillations can occur through a Hopf bifurcation.

  • 2 authors
·
Jul 16, 2020

High-order finite element method for atomic structure calculations

We introduce featom, an open source code that implements a high-order finite element solver for the radial Schr\"odinger, Dirac, and Kohn-Sham equations. The formulation accommodates various mesh types, such as uniform or exponential, and the convergence can be systematically controlled by increasing the number and/or polynomial order of the finite element basis functions. The Dirac equation is solved using a squared Hamiltonian approach to eliminate spurious states. To address the slow convergence of the kappa=pm1 states due to divergent derivatives at the origin, we incorporate known asymptotic forms into the solutions. We achieve a high level of accuracy (10^{-8} Hartree) for total energies and eigenvalues of heavy atoms such as uranium in both Schr\"odinger and Dirac Kohn-Sham solutions. We provide detailed convergence studies and computational parameters required to attain commonly required accuracies. Finally, we compare our results with known analytic results as well as the results of other methods. In particular, we calculate benchmark results for atomic numbers (Z) from 1 to 92, verifying current benchmarks. We demonstrate significant speedup compared to the state-of-the-art shooting solver dftatom. An efficient, modular Fortran 2008 implementation, is provided under an open source, permissive license, including examples and tests, wherein particular emphasis is placed on the independence (no global variables), reusability, and generality of the individual routines.

  • 8 authors
·
Jul 11, 2023 2

anyakrakusuma: A Python Library for Entropic Schrödinger Bridges on Idealized Geometries

We present anyakrakusuma, an open-source Python library that solves the discrete static Schrödinger bridge problem, the entropically regularized counterpart of optimal transport, through a log-domain Sinkhorn--Knopp iteration and reconstructs the entropic interpolation between two empirical point clouds. The solver is paired with a diagnostic pipeline that characterizes the optimal coupling and the intermediate distributions through information-theoretic and geometric measures. We exercise the library on four idealized planar cases spanning a circle-to-circle dilation, a spiral-to-mixture fragmentation, a rigid reorientation of two moons, and a Lissajous-to-trefoil deformation. The log-domain formulation is necessary rather than merely convenient at the parameters studied, where the cost-to-regularization ratio reaches four hundred and the Gibbs kernel underflows double precision across most of its range; the iteration nonetheless attains a marginal residual of 10^{-9} and unit marginal fidelity in every case. Residual histories decay geometrically over approximately eight decades at per-iteration contraction factors between 0.966 and 0.976, which are local rates near the fixed point that lie many orders of magnitude below the worst-case Hilbert-metric bound. The covariance analysis recovers an imposed ninety-degree reorientation to within 0.07^circ, roughly forty times smaller than its uncertainty, across a masked interval of near-isotropy on which the principal axis is unobservable. The diagnostics are reported with explicit attention to the regimes in which each is well defined, including the differential entropy, which is meaningful only on the open interpolation interval. The presented cases are constructed rather than measured; quantitative application to empirical point clouds requires further study.

DPM-Solver: A Fast ODE Solver for Diffusion Probabilistic Model Sampling in Around 10 Steps

Diffusion probabilistic models (DPMs) are emerging powerful generative models. Despite their high-quality generation performance, DPMs still suffer from their slow sampling as they generally need hundreds or thousands of sequential function evaluations (steps) of large neural networks to draw a sample. Sampling from DPMs can be viewed alternatively as solving the corresponding diffusion ordinary differential equations (ODEs). In this work, we propose an exact formulation of the solution of diffusion ODEs. The formulation analytically computes the linear part of the solution, rather than leaving all terms to black-box ODE solvers as adopted in previous works. By applying change-of-variable, the solution can be equivalently simplified to an exponentially weighted integral of the neural network. Based on our formulation, we propose DPM-Solver, a fast dedicated high-order solver for diffusion ODEs with the convergence order guarantee. DPM-Solver is suitable for both discrete-time and continuous-time DPMs without any further training. Experimental results show that DPM-Solver can generate high-quality samples in only 10 to 20 function evaluations on various datasets. We achieve 4.70 FID in 10 function evaluations and 2.87 FID in 20 function evaluations on the CIFAR10 dataset, and a 4sim 16times speedup compared with previous state-of-the-art training-free samplers on various datasets.

  • 6 authors
·
Jun 2, 2022