Large Language Models (LLMs) have shown impressive proficiency in code generation. Nonetheless, similar to human developers, these models might generate code that contains security vulnerabilities and flaws. Writing secure code remains a substantial challenge, as vulnerabilities often arise during interactions between programs and external systems or services, such as databases and operating systems. In this paper, we propose a novel approach, Feedback-Driven Solution Synthesis (FDSS), designed to explore the use of LLMs in receiving feedback from Bandit, which is a static code analysis tool, and then the LLMs generate potential solutions to resolve security vulnerabilities. Each solution, along with the vulnerable code, is then sent back to the LLM for code refinement. Our approach shows a significant improvement over the baseline and outperforms existing approaches. Furthermore, we introduce a new dataset, PythonSecurityEval, collected from real-world scenarios on Stack Overflow to evaluate the LLMs' ability to generate secure code. Code and data are available at \url{https://github.com/Kamel773/LLM-code-refine}

In modern neuroscience, functional magnetic resonance imaging (fMRI) has been a crucial and irreplaceable tool that provides a non-invasive window into the dynamics of whole-brain activity. Nevertheless, fMRI is limited by hemodynamic blurring as well as high cost, immobility, and incompatibility with metal implants. Electroencephalography (EEG) is complementary to fMRI and can directly record the cortical electrical activity at high temporal resolution, but has more limited spatial resolution and is unable to recover information about deep subcortical brain structures. The ability to obtain fMRI information from EEG would enable cost-effective, imaging across a wider set of brain regions. Further, beyond augmenting the capabilities of EEG, cross-modality models would facilitate the interpretation of fMRI signals. However, as both EEG and fMRI are high-dimensional and prone to artifacts, it is currently challenging to model fMRI from EEG. To address this challenge, we propose a novel architecture that can predict fMRI signals directly from multi-channel EEG without explicit feature engineering. Our model achieves this by implementing a Sinusoidal Representation Network (SIREN) to learn frequency information in brain dynamics from EEG, which serves as the input to a subsequent encoder-decoder to effectively reconstruct the fMRI signal from a specific brain region. We evaluate our model using a simultaneous EEG-fMRI dataset with 8 subjects and investigate its potential for predicting subcortical fMRI signals. The present results reveal that our model outperforms a recent state-of-the-art model, and indicates the potential of leveraging periodic activation functions in deep neural networks to model functional neuroimaging data.

Attention, specifically scaled dot-product attention, has proven effective for natural language, but it does not have a mechanism for handling hierarchical patterns of arbitrary nesting depth, which limits its ability to recognize certain syntactic structures. To address this shortcoming, we propose stack attention: an attention operator that incorporates stacks, inspired by their theoretical connections to context-free languages (CFLs). We show that stack attention is analogous to standard attention, but with a latent model of syntax that requires no syntactic supervision. We propose two variants: one related to deterministic pushdown automata (PDAs) and one based on nondeterministic PDAs, which allows transformers to recognize arbitrary CFLs. We show that transformers with stack attention are very effective at learning CFLs that standard transformers struggle on, achieving strong results on a CFL with theoretically maximal parsing difficulty. We also show that stack attention is more effective at natural language modeling under a constrained parameter budget, and we include results on machine translation.

Prompting and in-context learning (ICL) have become efficient learning paradigms for large language models (LLMs). However, LLMs suffer from prompt brittleness and various bias factors in the prompt, including but not limited to the formatting, the choice verbalizers, and the ICL examples. To address this problem that results in unexpected performance degradation, calibration methods have been developed to mitigate the effects of these biases while recovering LLM performance. In this work, we first conduct a systematic analysis of the existing calibration methods, where we both provide a unified view and reveal the failure cases. Inspired by these analyses, we propose Batch Calibration (BC), a simple yet intuitive method that controls the contextual bias from the batched input, unifies various prior approaches, and effectively addresses the aforementioned issues. BC is zero-shot, inference-only, and incurs negligible additional costs. In the few-shot setup, we further extend BC to allow it to learn the contextual bias from labeled data. We validate the effectiveness of BC with PaLM 2-(S, M, L) and CLIP models and demonstrate state-of-the-art performance over previous calibration baselines across more than 10 natural language understanding and image classification tasks. Prompting large language models (LLMs) (Chowdhery et al., 2022; Anil et al., 2023) has become Extensive research has been devoted to mitigating these biases, which we explicitly refer to the a-priori propensity of LLMs to predict certain classes over others unfairly.

Customizing machine translation models to comply with desired attributes (e.g., formality or grammatical gender) is a well-studied topic. However, most current approaches rely on (semi-)supervised data with attribute annotations. This data scarcity bottlenecks democratizing such customization possibilities to a wider range of languages, particularly lower-resource ones. This gap is out of sync with recent progress in pretrained massively multilingual translation models. In response, we transfer the attribute controlling capabilities to languages without attribute-annotated data with an NLLB-200 model as a foundation. Inspired by techniques from controllable generation, we employ a gradient-based inference-time controller to steer the pretrained model. The controller transfers well to zero-shot conditions, as it operates on pretrained multilingual representations and is attribute -- rather than language-specific. With a comprehensive comparison to finetuning-based control, we demonstrate that, despite finetuning's clear dominance in supervised settings, the gap to inference-time control closes when moving to zero-shot conditions, especially with new and distant target languages. The latter also shows stronger domain robustness. We further show that our inference-time control complements finetuning. A human evaluation on a real low-resource language, Bengali, confirms our findings. Our code is https://github.com/dannigt/attribute-controller-transfer

The aim of this paper is to present a mathematical framework for tensor PCA. The proposed approach is able to overcome the limitations of previous methods that extract a low dimensional subspace by iteratively solving an optimization problem. The core of the proposed approach is the derivation of a basis in tensor space from a real self-adjoint tensor operator, thus reducing the problem of deriving a basis to an eigenvalue problem. Three different cases have been studied to derive: i) a basis from a self-adjoint tensor operator; ii) a rank-1 basis; iii) a basis in a subspace. In particular, the equivalence between eigenvalue equation for a real self-adjoint tensor operator and standard matrix eigenvalue equation has been proven. For all the three cases considered, a subspace approach has been adopted to derive a tensor PCA. Experiments on image datasets validate the proposed mathematical framework.

Deep Neural Networks (DNN) have become a central method in ecology. Most current deep learning (DL) applications rely on one of the major deep learning frameworks, in particular Torch or TensorFlow, to build and train DNN. Using these frameworks, however, requires substantially more experience and time than typical regression functions in the R environment. Here, we present 'cito', a user-friendly R package for DL that allows specifying DNNs in the familiar formula syntax used by many R packages. To fit the models, 'cito' uses 'torch', taking advantage of the numerically optimized torch library, including the ability to switch between training models on the CPU or the graphics processing unit (GPU) (which allows to efficiently train large DNN). Moreover, 'cito' includes many user-friendly functions for model plotting and analysis, including optional confidence intervals (CIs) based on bootstraps for predictions and explainable AI (xAI) metrics for effect sizes and variable importance with CIs and p-values. To showcase a typical analysis pipeline using 'cito', including its built-in xAI features to explore the trained DNN, we build a species distribution model of the African elephant. We hope that by providing a user-friendly R framework to specify, deploy and interpret DNN, 'cito' will make this interesting model class more accessible to ecological data analysis. A stable version of 'cito' can be installed from the comprehensive R archive network (CRAN).

Recently, deep auto-encoders have been used for the task of anomaly detection in the visual domain. By optimising for the reconstruction error using anomaly-free examples, the common belief is that a corresponding network should fail to accurately reconstruct anomalous regions in the application phase. This goal is typically addressed by controlling the capacity of the network, either by reducing the size of the bottleneck layer or by enforcing sparsity constraints on its activations. However, neither of these techniques does explicitly penalise reconstruction of anomalous signals often resulting in poor detection. We tackle this problem by adapting a self-supervised learning regime that allows the use of discriminative information during training but focuses on the data manifold of normal examples. Precisely, we investigate two different training objectives inspired by the task of neural image inpainting. Our main objective regularises the model to produce locally consistent reconstructions, while replacing irregularities, therefore, acting as a filter that removes anomalous patterns. Our formal analysis shows that under mild conditions the corresponding model resembles a non-linear orthogonal projection of partially corrupted images onto the manifold of uncorrupted (defect-free) examples. This insight makes the reconstruction error a natural choice for defining the anomaly score of a sample according to its distance from a corresponding projection on the data manifold. We emphasise that inference with our approach is very efficient during training and prediction requiring a single forward pass for each input image. Our experiments on the MVTec AD dataset demonstrate high detection and localisation performance. On the texture-subset, in particular, our approach consistently outperforms recent anomaly detection methods by a significant margin.

The aim of this work is to create and apply a methodological approach for predicting gas traps from 3D seismic data and gas well testing. The proposed approach is based on binary classification algorithms with training on well data. The study includes the following sequence of operations: interpretation of gas well test results to determine the radius of radial gas filtration (IARF); correlation of the top and bottom of productive horizons based on seismic data in the near-wellbore space; creating volumes of space for positive and negative class; dividing the sample into training and validation; creation of a separate test sample for the metamodel; creation of a feature space - extraction of seismic wavefield attributes; creation of data sampling - assignment of a vector of seismic attributes to each point of space within the volumes of classes; selection of features; basic model training; generalized assessment of trait contribution; creation of an ensemble of classification models using a metamodel - logistic regression; prediction of the probability of space belonging to gas reservoirs; evaluation of forecast quality on a test sample. The paper formalizes an approach to creating a training dataset by selecting volumes with established gas saturation and filtration properties within a seismic wavefield. The volumes divide the studied space into positive and negative classes. Positive class is a volume of gas-saturated sands, identified by the results of detailed correlation of the gas sandstone top and bottom, within which there is a region with a boundary along the radius of continuous radial gas filtration.

Structural extraction of events within discourse is critical since it avails a deeper understanding of communication patterns and behavior trends. Event argument extraction (EAE), at the core of event-centric understanding, is the task of identifying role-specific text spans (i.e., arguments) for a given event. Document-level EAE (DocEAE) focuses on arguments that are scattered across an entire document. In this work, we explore the capabilities of open source Large Language Models (LLMs), i.e., Flan-UL2, for the DocEAE task. To this end, we propose ULTRA, a hierarchical framework that extracts event arguments more cost-effectively -- the method needs as few as 50 annotations and doesn't require hitting costly API endpoints. Further, it alleviates the positional bias issue intrinsic to LLMs. ULTRA first sequentially reads text chunks of a document to generate a candidate argument set, upon which ULTRA learns to drop non-pertinent candidates through self-refinement. We further introduce LEAFER to address the challenge LLMs face in locating the exact boundary of an argument span. ULTRA outperforms strong baselines, which include strong supervised models and ChatGPT, by 9.8% when evaluated by the exact match (EM) metric.