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We present a complete numerical analysis for a general discretization of a coupled flow-mechanics model in fractured porous media, considering single-phase flows and including frictionless contact at matrix-fracture interfaces, as well as nonlinear poromechanical coupling. Fractures are described as planar surfaces, yielding the so-called mixed- or hybrid-dimensional models. Small displacements and a linear elastic behavior are considered for the matrix. The model accounts for discontinuous fluid pressures at matrix-fracture interfaces in order to cover a wide range of normal fracture conductivities. The numerical analysis is carried out in the Gradient Discretization framework, encompassing a large family of conforming and nonconforming discretizations. The convergence result also yields, as a by-product, the existence of a weak solution to the continuous model. A numerical experiment in 2D is presented to support the obtained result, employing a Hybrid Finite Volume scheme for the flow and second-order finite elements ($\mathbb P_2$) for the mechanical displacement coupled with face-wise constant ($\mathbb P_0$) Lagrange multipliers on fractures, representing normal stresses, to discretize the contact conditions.

In probabilistic modelling, joint distributions are often of more interest than their marginals, but the standard composition of stochastic channels is defined by marginalization. Recently, the notion of 'copy-composition' was introduced in order to circumvent this problem and express the chain rule of the relative entropy fibrationally, but while that goal was achieved, copy-composition lacked a satisfactory origin story. Here, we supply such a story for two standard probabilistic tools: directed and undirected graphical models. We explain that (directed) Bayesian networks may be understood as "stochastic terms" of product type, in which context copy-composition amounts to a pull-push operation. Likewise, we show that (undirected) factor graphs compose by copy-composition. In each case, our construction yields a double fibration of decorated (co)spans. Along the way, we introduce a useful bifibration of measure kernels, to provide semantics for the notion of stochastic term, which allows us to generalize probabilistic modelling from product to dependent types.

We consider the problem of estimating the error when solving a system of differential algebraic equations. Richardson extrapolation is a classical technique that can be used to judge when computational errors are irrelevant and estimate the discretization error. We have simulated molecular dynamics with constraints using the GROMACS library and found that the output is not always amenable to Richardson extrapolation. We derive and illustrate Richardson extrapolation using a variety of numerical experiments. We identify two necessary conditions that are not always satisfied by the GROMACS library.

Nonparametric estimators for the mean and the covariance functions of functional data are proposed. The setup covers a wide range of practical situations. The random trajectories are, not necessarily differentiable, have unknown regularity, and are measured with error at discrete design points. The measurement error could be heteroscedastic. The design points could be either randomly drawn or common for all curves. The estimators depend on the local regularity of the stochastic process generating the functional data. We consider a simple estimator of this local regularity which exploits the replication and regularization features of functional data. Next, we use the ``smoothing first, then estimate'' approach for the mean and the covariance functions. They can be applied with both sparsely or densely sampled curves, are easy to calculate and to update, and perform well in simulations. Simulations built upon an example of real data set, illustrate the effectiveness of the new approach.

Neural operators have emerged as a powerful tool for learning the mapping between infinite-dimensional parameter and solution spaces of partial differential equations (PDEs). In this work, we focus on multiscale PDEs that have important applications such as reservoir modeling and turbulence prediction. We demonstrate that for such PDEs, the spectral bias towards low-frequency components presents a significant challenge for existing neural operators. To address this challenge, we propose a hierarchical attention neural operator (HANO) inspired by the hierarchical matrix approach. HANO features a scale-adaptive interaction range and self-attentions over a hierarchy of levels, enabling nested feature computation with controllable linear cost and encoding/decoding of multiscale solution space. We also incorporate an empirical $H^1$ loss function to enhance the learning of high-frequency components. Our numerical experiments demonstrate that HANO outperforms state-of-the-art (SOTA) methods for representative multiscale problems.

We develop a theory of finite-dimensional polyhedral subsets over the Wasserstein space and optimization of functionals over them via first-order methods. Our main application is to the problem of mean-field variational inference, which seeks to approximate a distribution $\pi$ over $\mathbb{R}^d$ by a product measure $\pi^\star$. When $\pi$ is strongly log-concave and log-smooth, we provide (1) approximation rates certifying that $\pi^\star$ is close to the minimizer $\pi^\star_\diamond$ of the KL divergence over a \emph{polyhedral} set $\mathcal{P}_\diamond$, and (2) an algorithm for minimizing $\text{KL}(\cdot\|\pi)$ over $\mathcal{P}_\diamond$ with accelerated complexity $O(\sqrt \kappa \log(\kappa d/\varepsilon^2))$, where $\kappa$ is the condition number of $\pi$.

Genome assembly is a prominent problem studied in bioinformatics, which computes the source string using a set of its overlapping substrings. Classically, genome assembly uses assembly graphs built using this set of substrings to compute the source string efficiently, having a tradeoff between scalability and avoiding information loss. The scalable de Bruijn graphs come at the price of losing crucial overlap information. The complete overlap information is stored in overlap graphs using quadratic space. Hierarchical overlap graphs [IPL20] (HOG) overcome these limitations, avoiding information loss despite using linear space. After a series of suboptimal improvements, Khan and Park et al. simultaneously presented two optimal algorithms [CPM2021], where only the former was seemingly practical. We empirically analyze all the practical algorithms for computing HOG on real and random datasets, where the optimal algorithm [CPM2021] outperforms the previous algorithms as expected, though at the expense of extra memory. However, it uses non-intuitive approach and non-trivial data structures. We present arguably the most intuitive algorithm, using only elementary arrays, which is also optimal. Our algorithm empirically proves even better for both time and memory over all the algorithms, highlighting its significance in both theory and practice. We further explore the applications of hierarchical overlap graphs to solve various forms of suffix-prefix queries on a set of strings. Loukides et al. [CPM2023] recently presented state-of-the-art algorithms for these queries. However, these algorithms require complex black-box data structures and are seemingly impractical. Our algorithms, despite failing to match the state-of-the-art algorithms theoretically, answer different queries ranging from 0.01-100 milliseconds for a data set having around a billion characters.

In this article, we consider the Chew, Goldberger \& Low (CGL) plasma flow equations, which is a set of nonlinear, non-conservative hyperbolic PDEs modelling anisotropic plasma flows. These equations incorporate the double adiabatic approximation for the evolution of the pressure, making them very valuable for plasma physics, space physics and astrophysical applications. We first present the entropy analysis for the weak solutions. We then propose entropy-stable finite-difference schemes for the CGL equations. The key idea is to rewrite the CGL equations such that the non-conservative terms do not contribute to the entropy equations. The conservative part of the rewritten equations is very similar to the magnetohydrodynamics (MHD) equations. We then symmetrize the conservative part by following Godunov's symmetrization process for MHD. The resulting equations are then discretized by designing entropy conservative numerical flux and entropy diffusion operator based on the entropy scaled eigenvectors of the conservative part. We then prove the semi-discrete entropy stability of the schemes for CGL equations. The schemes are then tested using several test problems derived from the corresponding MHD test cases.

We analyze a bilinear optimal control problem for the Stokes--Brinkman equations: the control variable enters the state equations as a coefficient. In two- and three-dimensional Lipschitz domains, we perform a complete continuous analysis that includes the existence of solutions and first- and second-order optimality conditions. We also develop two finite element methods that differ fundamentally in whether the admissible control set is discretized or not. For each of the proposed methods, we perform a convergence analysis and derive a priori error estimates; the latter under the assumption that the domain is convex. Finally, assuming that the domain is Lipschitz, we develop an a posteriori error estimator for each discretization scheme, obtain a global reliability bound, and investigate local efficiency estimates.