Enhancing LLM-Based Coding Tools through Native Integration of IDE-Derived Static Context

Large Language Models (LLMs) have achieved remarkable success in code completion, as evidenced by their essential roles in developing code assistant services such as Copilot. Being trained on in-file contexts, current LLMs are quite effective in completing code for single source files. However, it is challenging for them to conduct repository-level code completion for large software projects that require cross-file information. Existing research on LLM-based repository-level code completion identifies and integrates cross-file contexts, but it suffers from low accuracy and limited context length of LLMs. In this paper, we argue that Integrated Development Environments (IDEs) can provide direct, accurate and real-time cross-file information for repository-level code completion. We propose IDECoder, a practical framework that leverages IDE native static contexts for cross-context construction and diagnosis results for self-refinement. IDECoder utilizes the rich cross-context information available in IDEs to enhance the capabilities of LLMs of repository-level code completion. We conducted preliminary experiments to validate the performance of IDECoder and observed that this synergy represents a promising trend for future exploration.

ChatGraph: Chat with Your Graphs

Graph analysis is fundamental in real-world applications. Traditional approaches rely on SPARQL-like languages or clicking-and-dragging interfaces to interact with graph data. However, these methods either require users to possess high programming skills or support only a limited range of graph analysis functionalities. To address the limitations, we propose a large language model (LLM)-based framework called ChatGraph. With ChatGraph, users can interact with graphs through natural language, making it easier to use and more flexible than traditional approaches. The core of ChatGraph lies in generating chains of graph analysis APIs based on the understanding of the texts and graphs inputted in the user prompts. To achieve this, ChatGraph consists of three main modules: an API retrieval module that searches for relevant APIs, a graph-aware LLM module that enables the LLM to comprehend graphs, and an API chain-oriented finetuning module that guides the LLM in generating API chains.

VLUCI: Variational Learning of Unobserved Confounders for Counterfactual Inference

Causal inference plays a vital role in diverse domains like epidemiology, healthcare, and economics. De-confounding and counterfactual prediction in observational data has emerged as a prominent concern in causal inference research. While existing models tackle observed confounders, the presence of unobserved confounders remains a significant challenge, distorting causal inference and impacting counterfactual outcome accuracy. To address this, we propose a novel variational learning model of unobserved confounders for counterfactual inference (VLUCI), which generates the posterior distribution of unobserved confounders. VLUCI relaxes the unconfoundedness assumption often overlooked by most causal inference methods. By disentangling observed and unobserved confounders, VLUCI constructs a doubly variational inference model to approximate the distribution of unobserved confounders, which are used for inferring more accurate counterfactual outcomes. Extensive experiments on synthetic and semi-synthetic datasets demonstrate VLUCI's superior performance in inferring unobserved confounders. It is compatible with state-of-the-art counterfactual inference models, significantly improving inference accuracy at both group and individual levels. Additionally, VLUCI provides confidence intervals for counterfactual outcomes, aiding decision-making in risk-sensitive domains. We further clarify the considerations when applying VLUCI to cases where unobserved confounders don't strictly conform to our model assumptions using the public IHDP dataset as an example, highlighting the practical advantages of VLUCI.

No More Fine-Tuning? An Experimental Evaluation of Prompt Tuning in Code Intelligence

Pre-trained models have been shown effective in many code intelligence tasks. These models are pre-trained on large-scale unlabeled corpus and then fine-tuned in downstream tasks. However, as the inputs to pre-training and downstream tasks are in different forms, it is hard to fully explore the knowledge of pre-trained models. Besides, the performance of fine-tuning strongly relies on the amount of downstream data, while in practice, the scenarios with scarce data are common. Recent studies in the natural language processing (NLP) field show that prompt tuning, a new paradigm for tuning, alleviates the above issues and achieves promising results in various NLP tasks. In prompt tuning, the prompts inserted during tuning provide task-specific knowledge, which is especially beneficial for tasks with relatively scarce data. In this paper, we empirically evaluate the usage and effect of prompt tuning in code intelligence tasks. We conduct prompt tuning on popular pre-trained models CodeBERT and CodeT5 and experiment with three code intelligence tasks including defect prediction, code summarization, and code translation. Our experimental results show that prompt tuning consistently outperforms fine-tuning in all three tasks. In addition, prompt tuning shows great potential in low-resource scenarios, e.g., improving the BLEU scores of fine-tuning by more than 26\% on average for code summarization. Our results suggest that instead of fine-tuning, we could adapt prompt tuning for code intelligence tasks to achieve better performance, especially when lacking task-specific data.

Source Code Summarization with Structural Relative Position Guided Transformer

Source code summarization aims at generating concise and clear natural language descriptions for programming languages. Well-written code summaries are beneficial for programmers to participate in the software development and maintenance process. To learn the semantic representations of source code, recent efforts focus on incorporating the syntax structure of code into neural networks such as Transformer. Such Transformer-based approaches can better capture the long-range dependencies than other neural networks including Recurrent Neural Networks (RNNs), however, most of them do not consider the structural relative correlations between tokens, e.g., relative positions in Abstract Syntax Trees (ASTs), which is beneficial for code semantics learning. To model the structural dependency, we propose a Structural Relative Position guided Transformer, named SCRIPT. SCRIPT first obtains the structural relative positions between tokens via parsing the ASTs of source code, and then passes them into two types of Transformer encoders. One Transformer directly adjusts the input according to the structural relative distance; and the other Transformer encodes the structural relative positions during computing the self-attention scores. Finally, we stack these two types of Transformer encoders to learn representations of source code. Experimental results show that the proposed SCRIPT outperforms the state-of-the-art methods by at least 1.6%, 1.4% and 2.8% with respect to BLEU, ROUGE-L and METEOR on benchmark datasets, respectively. We further show that how the proposed SCRIPT captures the structural relative dependencies.

Transfer Learning from an Artificial Radiograph-landmark Dataset for Registration of the Anatomic Skull Model to Dual Fluoroscopic X-ray Images

Registration of 3D anatomic structures to their 2D dual fluoroscopic X-ray images is a widely used motion tracking technique. However, deep learning implementation is often impeded by a paucity of medical images and ground truths. In this study, we proposed a transfer learning strategy for 3D-to-2D registration using deep neural networks trained from an artificial dataset. Digitally reconstructed radiographs (DRRs) and radiographic skull landmarks were automatically created from craniocervical CT data of a female subject. They were used to train a residual network (ResNet) for landmark detection and a cycle generative adversarial network (GAN) to eliminate the style difference between DRRs and actual X-rays. Landmarks on the X-rays experiencing GAN style translation were detected by the ResNet, and were used in triangulation optimization for 3D-to-2D registration of the skull in actual dual-fluoroscope images (with a non-orthogonal setup, point X-ray sources, image distortions, and partially captured skull regions). The registration accuracy was evaluated in multiple scenarios of craniocervical motions. In walking, learning-based registration for the skull had angular/position errors of 3.9 +- 2.1 deg / 4.6 +- 2.2 mm. However, the accuracy was lower during functional neck activity, due to overly small skull regions imaged on the dual fluoroscopic images at end-range positions. The methodology to strategically augment artificial training data can tackle the complicated skull registration scenario, and has potentials to extend to widespread registration scenarios.

Graph Embedding for Combinatorial Optimization: A Survey

Graphs have been widely used to represent complex data in many applications, such as e-commerce, social networks, and bioinformatics. Efficient and effective analysis of graph data is important for graph-based applications. However, most graph analysis tasks are combinatorial optimization (CO) problems, which are NP-hard. Recent studies have focused a lot on the potential of using machine learning (ML) to solve graph-based CO problems. Using ML- based CO methods, a graph has to be represented in numerical vectors, which is known as graph embedding. In this survey, we provide a thorough overview of recent graph embedding methods that have been used to solve CO problems. Most graph embedding methods have two stages: graph preprocessing and ML model learning. This survey classifies graph embedding works from the perspective of graph preprocessing tasks and ML models. Furthermore, this survey summarizes recent graph-based CO methods that exploit graph embedding. In particular, graph embedding can be employed as part of classification techniques or can be combined with search methods to find solutions to CO problems. The survey ends with several remarks on future research directions.

Modifying Bayesian Networks by Probability Constraints

This paper deals with the following problem: modify a Bayesian network to satisfy a given set of probability constraints by only change its conditional probability tables, and the probability distribution of the resulting network should be as close as possible to that of the original network. We propose to solve this problem by extending IPFP (iterative proportional fitting procedure) to probability distributions represented by Bayesian networks. The resulting algorithm E-IPFP is further developed to D-IPFP, which reduces the computational cost by decomposing a global EIPFP into a set of smaller local E-IPFP problems. Limited analysis is provided, including the convergence proofs of the two algorithms. Computer experiments were conducted to validate the algorithms. The results are consistent with the theoretical analysis.