Daily Papers

Normalization layers are a staple in state-of-the-art deep neural network architectures. They are widely believed to stabilize training, enable higher learning rate, accelerate convergence and improve generalization, though the reason for their effectiveness is still an active research topic. In this work, we challenge the commonly-held beliefs by showing that none of the perceived benefits is unique to normalization. Specifically, we propose fixed-update initialization (Fixup), an initialization motivated by solving the exploding and vanishing gradient problem at the beginning of training via properly rescaling a standard initialization. We find training residual networks with Fixup to be as stable as training with normalization -- even for networks with 10,000 layers. Furthermore, with proper regularization, Fixup enables residual networks without normalization to achieve state-of-the-art performance in image classification and machine translation.

In this work, we study the evolution of the loss Hessian across many classification tasks in order to understand the effect the curvature of the loss has on the training dynamics. Whereas prior work has focused on how different learning rates affect the loss Hessian observed during training, we also analyze the effects of model initialization, architectural choices, and common training heuristics such as gradient clipping and learning rate warmup. Our results demonstrate that successful model and hyperparameter choices allow the early optimization trajectory to either avoid -- or navigate out of -- regions of high curvature and into flatter regions that tolerate a higher learning rate. Our results suggest a unifying perspective on how disparate mitigation strategies for training instability ultimately address the same underlying failure mode of neural network optimization, namely poor conditioning. Inspired by the conditioning perspective, we show that learning rate warmup can improve training stability just as much as batch normalization, layer normalization, MetaInit, GradInit, and Fixup initialization.

Large language models (LLMs) have shown impressive effectiveness in various software engineering tasks, including automated program repair (APR). In this study, we take a deep dive into automated bug fixing utilizing LLMs. In contrast to many deep learning-based APR methods that assume known bug locations, rely on line-level localization tools, or address bug prediction and fixing in one step, our approach uniquely employs LLMs to predict bug location at the token level and subsequently utilizes them for bug fixing. This methodological separation of bug localization and fixing using different LLMs enables effective integration of diverse contextual information and improved incorporation of inductive biases. We introduce Toggle: Token-Granulated Bug Localization and Repair, a comprehensive program repair framework that integrates a bug localization model, an adjustment unit, and a bug-fixing model. Toggle takes a buggy function as input and generates a complete corrected function. We investigate various styles of prompting to the bug fixing model to identify the most effective prompts that better utilize the inductive bias and significantly outperform others. Toggle achieves the new state-of-the-art (SOTA) performance on the CodeXGLUE code refinement benchmark, and exhibits better and comparable performance on several other widely-used APR datasets, including Defects4J.

Tremendous efforts have been devoted to automating software debugging, a time-consuming process involving fault localization and repair generation. Recently, Large Language Models (LLMs) have shown great potential in automated debugging. However, we identified three challenges posed to traditional and LLM-based debugging tools: 1) the upstream imperfection of fault localization affects the downstream repair, 2) the deficiency in handling complex logic errors, and 3) the ignorance of program contexts. In this context, we propose the first automated, unified debugging framework, FixAgent, via LLM agent synergy. FixAgent can perform end-to-end localization, repair, and analysis of bugs. Our insight is that LLMs can benefit from general software engineering principles recognized by human developers in debugging, such as rubber duck debugging, enabling a better understanding of program functionality and logic bugs. Hence, we create three designs inspired by rubber ducking to address these challenges. They are agent specialization and synergy, key variable tracking, and program context comprehension, which request LLMs to provide explicit explanations and force them to focus on crucial program logic information. Experiments on the widely used dataset QuixBugs show that FixAgent correctly fixes 79 out of 80 bugs, 9 of which have never been fixed. It also plausibly patches 1.9X more defects than the best-performing repair tool on CodeFlaws, even with no bug location information and fewer than 0.6% sampling times. On average, FixAgent increases about 20% plausible and correct fixes compared to its base model using different LLMs, showing the effectiveness of our designs. Moreover, the correctness rate of FixAgent reaches remarkably 97.26%, indicating that FixAgent can potentially overcome the overfitting issue of the existing approaches.

Automatic program repair (APR) is crucial to improve software reliability. Recently, neural machine translation (NMT) techniques have been used to fix software bugs automatically. While promising, these approaches have two major limitations. Their search space often does not contain the correct fix, and their search strategy ignores software knowledge such as strict code syntax. Due to these limitations, existing NMT-based techniques underperform the best template-based approaches. We propose CURE, a new NMT-based APR technique with three major novelties. First, CURE pre-trains a programming language (PL) model on a large software codebase to learn developer-like source code before the APR task. Second, CURE designs a new code-aware search strategy that finds more correct fixes by focusing on compilable patches and patches that are close in length to the buggy code. Finally, CURE uses a subword tokenization technique to generate a smaller search space that contains more correct fixes. Our evaluation on two widely-used benchmarks shows that CURE correctly fixes 57 Defects4J bugs and 26 QuixBugs bugs, outperforming all existing APR techniques on both benchmarks.

Correcting bugs using modern Automated Program Repair (APR) can be both time-consuming and resource-expensive. We describe a program repair approach that aims to improve the scalability of modern APR tools. The approach leverages program reduction in the form of program slicing to eliminate code irrelevant to fixing the bug, which improves the APR tool's overall performance. We investigate slicing's impact on all three phases of the repair process: fault localization, patch generation, and patch validation. Our empirical exploration finds that the proposed approach, on average, enhances the repair ability of the TBar APR tool, but we also discovered a few cases where it was less successful. Specifically, on examples from the widely used Defects4J dataset, we obtain a substantial reduction in median repair time, which falls from 80 minutes to just under 18 minutes. We conclude that program reduction can improve the performance of APR without degrading repair quality, but this improvement is not universal. A replication package is available via Zenodo at https://doi.org/10.5281/zenodo.13074333. Keywords: automated program repair, dynamic program slicing, fault localization, test-suite reduction, hybrid techniques.

While prompt tuning approaches have achieved competitive performance with high efficiency, we observe that they invariably employ the same initialization process, wherein the soft prompt is either randomly initialized or derived from an existing embedding vocabulary. In contrast to these conventional methods, this study aims to investigate an alternative way to derive soft prompt. Our empirical studies show that the soft prompt typically exhibits a low intrinsic rank characteristic. With such observations, we propose decomposed prompt tuning, a novel approach that utilizes low-rank matrices to initialize the soft prompt. Through the low-rank reparameterization, our method significantly reduces the number of trainable parameters while maintaining effectiveness. Experimental results on the SuperGLUE benchmark in both high-resource and low-resource scenarios demonstrate the effectiveness of the proposed method.

Current approaches to program synthesis with Large Language Models (LLMs) exhibit a "near miss syndrome": they tend to generate programs that semantically resemble the correct answer (as measured by text similarity metrics or human evaluation), but achieve a low or even zero accuracy as measured by unit tests due to small imperfections, such as the wrong input or output format. This calls for an approach known as Synthesize, Execute, Debug (SED), whereby a draft of the solution is generated first, followed by a program repair phase addressing the failed tests. To effectively apply this approach to instruction-driven LLMs, one needs to determine which prompts perform best as instructions for LLMs, as well as strike a balance between repairing unsuccessful programs and replacing them with newly generated ones. We explore these trade-offs empirically, comparing replace-focused, repair-focused, and hybrid debug strategies, as well as different template-based and model-based prompt-generation techniques. We use OpenAI Codex as the LLM and Program Synthesis Benchmark 2 as a database of problem descriptions and tests for evaluation. The resulting framework outperforms both conventional usage of Codex without the repair phase and traditional genetic programming approaches.

Millions of open-source projects with numerous bug fixes are available in code repositories. This proliferation of software development histories can be leveraged to learn how to fix common programming bugs. To explore such a potential, we perform an empirical study to assess the feasibility of using Neural Machine Translation techniques for learning bug-fixing patches for real defects. First, we mine millions of bug-fixes from the change histories of projects hosted on GitHub, in order to extract meaningful examples of such bug-fixes. Next, we abstract the buggy and corresponding fixed code, and use them to train an Encoder-Decoder model able to translate buggy code into its fixed version. In our empirical investigation we found that such a model is able to fix thousands of unique buggy methods in the wild. Overall, this model is capable of predicting fixed patches generated by developers in 9-50% of the cases, depending on the number of candidate patches we allow it to generate. Also, the model is able to emulate a variety of different Abstract Syntax Tree operations and generate candidate patches in a split second.

Most programmers make mistakes when writing code. Some of these mistakes are small and require few edits to the original program -- a class of errors recently termed last mile mistakes. These errors break the flow for experienced developers and can stump novice programmers. Existing automated repair techniques targeting this class of errors are language-specific and do not easily carry over to new languages. Transferring symbolic approaches requires substantial engineering and neural approaches require data and retraining. We introduce RING, a multilingual repair engine powered by a large language model trained on code (LLMC) such as Codex. Such a multilingual engine enables a flipped model for programming assistance, one where the programmer writes code and the AI assistance suggests fixes, compared to traditional code suggestion technology. Taking inspiration from the way programmers manually fix bugs, we show that a prompt-based strategy that conceptualizes repair as localization, transformation, and candidate ranking, can successfully repair programs in multiple languages with minimal effort. We present the first results for such a multilingual repair engine by evaluating on 6 different languages and comparing performance to language-specific repair engines. We show that RING can outperform language-specific repair engines for three of these languages.

Automated program repair (APR) aims to fix software bugs without human intervention and template-based APR has been widely investigated with promising results. However, it is challenging for template-based APR to select the appropriate donor code, which is an important repair ingredient for generating candidate patches. Inappropriate donor code may cause plausible but incorrect patch generation even with correct fix patterns, limiting the repair performance. In this paper, we aim to revisit template-based APR, and propose GAMMA, to directly leverage large pre-trained language models for donor code generation. Our main insight is that instead of retrieving donor code in the local buggy file, we can directly predict the correct code tokens based on the context code snippets and repair patterns by a cloze task. Specifically, (1) GAMMA revises a variety of fix templates from state-of-the-art template-based APR techniques (i.e., TBar) and transforms them into mask patterns. (2) GAMMA adopts a pre-trained language model to predict the correct code for masked code as a fill-in-the-blank task. The experimental results demonstrate that GAMMA correctly repairs 82 bugs on Defects4J-v1.2, which achieves 20.59\% (14 bugs) and 26.15\% (17 bugs) improvement over the previous state-of-the-art template-based approach TBar and learning-based one Recoder. Furthermore, GAMMA repairs 45 bugs and 22 bugs from the additional Defects4J-v2.0 and QuixBugs, indicating the generalizability of GAMMA in addressing the dataset overfitting issue. We also prove that adopting other pre-trained language models can provide substantial advancement, e.g., CodeBERT-based and ChatGPT-based GAMMA is able to fix 80 and 67 bugs on Defects4J-v1.2, indicating the scalability of GAMMA. Overall, our study highlights the promising future of adopting pre-trained models to generate correct patches on top of fix patterns.

Static analysis tools are widely used for vulnerability detection as they understand programs with complex behavior and millions of lines of code. Despite their popularity, static analysis tools are known to generate an excess of false positives. The recent ability of Machine Learning models to understand programming languages opens new possibilities when applied to static analysis. However, existing datasets to train models for vulnerability identification suffer from multiple limitations such as limited bug context, limited size, and synthetic and unrealistic source code. We propose D2A, a differential analysis based approach to label issues reported by static analysis tools. The D2A dataset is built by analyzing version pairs from multiple open source projects. From each project, we select bug fixing commits and we run static analysis on the versions before and after such commits. If some issues detected in a before-commit version disappear in the corresponding after-commit version, they are very likely to be real bugs that got fixed by the commit. We use D2A to generate a large labeled dataset to train models for vulnerability identification. We show that the dataset can be used to build a classifier to identify possible false alarms among the issues reported by static analysis, hence helping developers prioritize and investigate potential true positives first.

Context: Bugs in code are inevitable and can lead to severe consequences, ranging from security vulnerabilities to operational failures. Debugging software remains challenging despite advances in testing and verification, often requiring extensive manual effort. Learning-based automated program repair (APR) has shown promise in reducing the time, effort, and cost of manually fixing bugs. However, existing techniques face several challenges, including language-dependent strategies, limited bug context utilization, and difficulties in handling bugs that span multiple locations in the code. Objective: This paper introduces MultiMend, a learning-based APR approach designed to improve repair performance on multiple programming languages with language-independent context augmentation and multi-hunk patch generation. Method: MultiMend fine-tunes a pre-trained encoder-decoder transformer model (CodeT5) to generate bug-fixing patches. It embeds source code lines and applies retrieval-augmented generation to augment the buggy context with relevant lines during patch generation. The approach systematically constructs patches for multi-hunk bugs to reduce the needed patch validations. We evaluate MultiMend on four benchmarks with four programming languages and compare it with state-of-the-art methods. Results: Experimental results show that MultiMend achieves competitive effectiveness and efficiency against compared tools. Across all benchmarks, MultiMend fixes 2,077 bugs, of which 1,455 are identical to the developer's patch, and 106 are for multi-hunk bugs. Both context augmentation and multi-hunk patch generation positively contribute to the results. Conclusion: MultiMend shows promising performance across benchmarks. The findings highlight its applicability to real-world software maintenance and its potential to reduce manual debugging efforts.

In the multi-commit development model, programmers complete tasks (e.g., implementing a feature) by organizing their work in several commits and packaging them into a commit-set. Analyzing data from developers using this model can be useful to tackle challenging developers' needs, such as knowing which features introduce a bug as well as assessing the risk of integrating certain features in a release. However, to do so one first needs to identify fix-inducing commit-sets. For such an identification, the SZZ algorithm is the most natural candidate, but its performance has not been evaluated in the multi-commit context yet. In this study, we conduct an in-depth investigation on the reliability and performance of SZZ in the multi-commit model. To obtain a reliable ground truth, we consider an already existing SZZ dataset and adapt it to the multi-commit context. Moreover, we devise a second dataset that is more extensive and directly created by developers as well as Quality Assurance (QA) engineers of Mozilla. Based on these datasets, we (1) test the performance of B-SZZ and its non-language-specific SZZ variations in the context of the multi-commit model, (2) investigate the reasons behind their specific behavior, and (3) analyze the impact of non-relevant commits in a commit-set and automatically detect them before using SZZ.

During Automated Program Repair (APR), it can be challenging to synthesize correct patches for real-world systems in general-purpose programming languages. Recent Large Language Models (LLMs) have been shown to be helpful "copilots" in assisting developers with various coding tasks, and have also been directly applied for patch synthesis. However, most LLMs treat programs as sequences of tokens, meaning that they are ignorant of the underlying semantics constraints of the target programming language. This results in plenty of statically invalid generated patches, impeding the practicality of the technique. Therefore, we propose Repilot, a framework to further copilot the AI "copilots" (i.e., LLMs) by synthesizing more valid patches during the repair process. Our key insight is that many LLMs produce outputs autoregressively (i.e., token by token), resembling human writing programs, which can be significantly boosted and guided through a Completion Engine. Repilot synergistically synthesizes a candidate patch through the interaction between an LLM and a Completion Engine, which 1) prunes away infeasible tokens suggested by the LLM and 2) proactively completes the token based on the suggestions provided by the Completion Engine. Our evaluation on a subset of the widely-used Defects4j 1.2 and 2.0 datasets shows that Repilot fixes 66 and 50 bugs, respectively, surpassing the best-performing baseline by 14 and 16 bugs fixed. More importantly, Repilot is capable of producing more valid and correct patches than the base LLM when given the same generation budget.

Automated Program Repair (APR) has evolved significantly with the advent of Large Language Models (LLMs). Fine-tuning LLMs for program repair is a recent avenue of research, with many dimensions which have not been explored. Existing work mostly fine-tunes LLMs with naive code representations and is fundamentally limited in its ability to fine-tune larger LLMs. To address this problem, we propose RepairLLaMA, a novel program repair approach that combines 1) code representations for APR and 2) the state-of-the-art parameter-efficient LLM fine-tuning technique called LoRA. This results in RepairLLaMA producing a highly effective `program repair adapter' for fixing bugs with language models. Our experiments demonstrate the validity of both concepts. First, fine-tuning adapters with program repair specific code representations enables the model to use meaningful repair signals. Second, parameter-efficient fine-tuning helps fine-tuning to converge and contributes to the effectiveness of the repair adapter to fix data-points outside the fine-tuning data distribution. Overall, RepairLLaMA correctly fixes 125 Defects4J v2 and 82 HumanEval-Java bugs, outperforming all baselines.

Large language models (LLMs) have demonstrated remarkable capabilities on a broad spectrum of downstream tasks. Within the realm of software engineering, specialized tasks on code, such as program repair, present unique challenges, necessitating fine-tuning to unlock state-of-the-art performance. Fine-tuning approaches proposed in the literature for LLMs on program repair tasks are however generally overlooking the need to reason about the logic behind code changes, beyond syntactic patterns in the data. High-performing fine-tuning experiments also usually come at very high computational costs. With MORepair, we propose a novel perspective on the learning focus of LLM fine-tuning for program repair: we not only adapt the LLM parameters to the syntactic nuances of the task of code transformation (objective 1), but we also specifically fine-tune the LLM with respect to the logical reason behind the code change in the training data (objective 2). Such a multi-objective fine-tuning will instruct LLMs to generate high-quality patches. We apply MORepair to fine-tune four open-source LLMs with different sizes and architectures. Experimental results on C++ and Java repair benchmarks show that the implemented fine-tuning effectively boosts LLM repair performance by 7.6% to 10% in Top-10 repair suggestions. We further show that our fine-tuning strategy yields superior performance compared to the incumbent state-of-the-art in fine-tuned models for program repair, Fine-tune-CoT and RepairLLaMA.

Automated Program Repair (APR) improves software reliability by generating patches for a buggy program automatically. Recent APR techniques leverage deep learning (DL) to build models to learn to generate patches from existing patches and code corpora. While promising, DL-based APR techniques suffer from the abundant syntactically or semantically incorrect patches in the patch space. These patches often disobey the syntactic and semantic domain knowledge of source code and thus cannot be the correct patches to fix a bug. We propose a DL-based APR approach KNOD, which incorporates domain knowledge to guide patch generation in a direct and comprehensive way. KNOD has two major novelties, including (1) a novel three-stage tree decoder, which directly generates Abstract Syntax Trees of patched code according to the inherent tree structure, and (2) a novel domain-rule distillation, which leverages syntactic and semantic rules and teacher-student distributions to explicitly inject the domain knowledge into the decoding procedure during both the training and inference phases. We evaluate KNOD on three widely-used benchmarks. KNOD fixes 72 bugs on the Defects4J v1.2, 25 bugs on the QuixBugs, and 50 bugs on the additional Defects4J v2.0 benchmarks, outperforming all existing APR tools.

Research shows that grammatical mistakes in a sentence can be corrected by translating it to another language and back using neural machine translation with language models. We investigate whether this correction capability of Large Language Models (LLMs) extends to Automatic Program Repair (APR). Current generative models for APR are pre-trained on source code and fine-tuned for repair. This paper proposes bypassing the fine-tuning step and using Round-Trip Translation (RTT): translation of code from one programming language to another programming or natural language, and back. We hypothesize that RTT with LLMs restores the most commonly seen patterns in code during pre-training, i.e., performs a regression toward the mean, which removes bugs as they are a form of noise w.r.t. the more frequent, natural, bug-free code in the training data. To test this hypothesis, we employ eight recent LLMs pre-trained on code, including the latest GPT versions, and four common program repair benchmarks in Java. We find that RTT with English as an intermediate language repaired 101 of 164 bugs with GPT-4 on the HumanEval-Java dataset. Moreover, 46 of these are unique bugs that are not repaired by other LLMs fine-tuned for APR. Our findings highlight the viability of round-trip translation with LLMs as a technique for automated program repair and its potential for research in software engineering. Keywords: automated program repair, large language model, machine translation

To support software developers in finding and fixing software bugs, several automated program repair techniques have been introduced. Given a test suite, standard methods usually either synthesize a repair, or navigate a search space of software edits to find test-suite passing variants. Recent program repair methods are based on deep learning approaches. One of these novel methods, which is not primarily intended for automated program repair, but is still suitable for it, is ChatGPT. The bug fixing performance of ChatGPT, however, is so far unclear. Therefore, in this paper we evaluate ChatGPT on the standard bug fixing benchmark set, QuixBugs, and compare the performance with the results of several other approaches reported in the literature. We find that ChatGPT's bug fixing performance is competitive to the common deep learning approaches CoCoNut and Codex and notably better than the results reported for the standard program repair approaches. In contrast to previous approaches, ChatGPT offers a dialogue system through which further information, e.g., the expected output for a certain input or an observed error message, can be entered. By providing such hints to ChatGPT, its success rate can be further increased, fixing 31 out of 40 bugs, outperforming state-of-the-art.

Language Models (LMs) have become widely used in software engineering, especially for tasks such as code generation, where they are referred to as code LMs. These models have proven effective in generating code, making it easier for developers to automate coding activities. However, research has highlighted a significant limitation: despite their effectiveness, LMs often produce code that is incorrect, buggy, or not fully functional. Updating these models with limited data can be prohibitively challenging, yet it is essential to maximize their utility. This may require hot-fix techniques (updating models with limited data) to resolve. In this paper, we propose Model Improvement via Neuron Targeting (MINT), a novel approach for repairing code LMs. MINT leverages the semantic property of language models to perform neuron-level repairs in a novel way. Further, by analyzing the relationships between the model's latent representations, the incorrect outputs, and the desired outputs, MINT determines which neurons are worth updating. This approach ensures that only the neurons crucial to the model's failure are targeted, avoiding unnecessary changes and allowing for a more efficient and precise repair process. MINT is effective, efficient, and reliable, capable of correcting a neural model by patching a minimum number of neurons (usually one or two neurons). Our approach is evaluated on three coding tasks: line-level code generation, shellcode generation, and intent-to-bash translation. The experimental results demonstrate that the proposed approach significantly outperforms the state-of-the-art in both effectiveness and efficiency measures. In addition, we analyze and discuss the side effects of model repair techniques, including the balance between generalization and specificity, and the performance after multiple repairs in succession.

Bug-fix benchmarks are essential for evaluating methodologies in automatic program repair (APR) and fault localization (FL). However, existing benchmarks, exemplified by Defects4J, need to evolve to incorporate recent bug-fixes aligned with contemporary development practices. Moreover, reproducibility, a key scientific principle, has been lacking in bug-fix benchmarks. To address these gaps, we present GitBug-Java, a reproducible benchmark of recent Java bugs. GitBug-Java features 199 bugs extracted from the 2023 commit history of 55 notable open-source repositories. The methodology for building GitBug-Java ensures the preservation of bug-fixes in fully-reproducible environments. We publish GitBug-Java at https://github.com/gitbugactions/gitbug-java.

Large Language Models (LLMs) have demonstrated remarkable proficiency across a variety of complex tasks. One significant application of LLMs is in tackling software engineering challenges, particularly in resolving real-world tasks on GitHub by fixing code based on the issues reported by the users. However, many current approaches rely on proprietary LLMs, which limits reproducibility, accessibility, and transparency. The critical components of LLMs for addressing software engineering issues and how their capabilities can be effectively enhanced remain unclear. To address these challenges, we introduce SWE-Fixer, a novel open-source LLM designed to effectively and efficiently resolve GitHub issues. SWE-Fixer comprises two essential modules: a code file retrieval module and a code editing module. The retrieval module employs BM25 along with a lightweight LLM model to achieve coarse-to-fine file retrieval. Subsequently, the code editing module utilizes the other LLM model to generate patches for the identified files. Then, to mitigate the lack of publicly available datasets, we compile an extensive dataset that includes 110K GitHub issues along with their corresponding patches, and train the two modules of SWE-Fixer separately. We assess our approach on the SWE-Bench Lite and Verified benchmarks, achieving state-of-the-art performance among open-source models with scores of 23.3% and 30.2%, respectively. These outcomes highlight the efficacy of our approach. We will make our model, dataset, and code publicly available at https://github.com/InternLM/SWE-Fixer.

Automated program repair (APR) aims to fix software bugs automatically and plays a crucial role in software development and maintenance. With the recent advances in deep learning (DL), an increasing number of APR techniques have been proposed to leverage neural networks to learn bug-fixing patterns from massive open-source code repositories. Such learning-based techniques usually treat APR as a neural machine translation (NMT) task, where buggy code snippets (i.e., source language) are translated into fixed code snippets (i.e., target language) automatically. Benefiting from the powerful capability of DL to learn hidden relationships from previous bug-fixing datasets, learning-based APR techniques have achieved remarkable performance. In this paper, we provide a systematic survey to summarize the current state-of-the-art research in the learning-based APR community. We illustrate the general workflow of learning-based APR techniques and detail the crucial components, including fault localization, patch generation, patch ranking, patch validation, and patch correctness phases. We then discuss the widely-adopted datasets and evaluation metrics and outline existing empirical studies. We discuss several critical aspects of learning-based APR techniques, such as repair domains, industrial deployment, and the open science issue. We highlight several practical guidelines on applying DL techniques for future APR studies, such as exploring explainable patch generation and utilizing code features. Overall, our paper can help researchers gain a comprehensive understanding about the achievements of the existing learning-based APR techniques and promote the practical application of these techniques. Our artifacts are publicly available at https://github.com/QuanjunZhang/AwesomeLearningAPR.

Large language models of code (Code-LLMs) have recently brought tremendous advances to code completion, a fundamental feature of programming assistance and code intelligence. However, most existing works ignore the possible presence of bugs in the code context for generation, which are inevitable in software development. Therefore, we introduce and study the buggy-code completion problem, inspired by the realistic scenario of real-time code suggestion where the code context contains potential bugs -- anti-patterns that can become bugs in the completed program. To systematically study the task, we introduce two datasets: one with synthetic bugs derived from semantics-altering operator changes (buggy-HumanEval) and one with realistic bugs derived from user submissions to coding problems (buggy-FixEval). We find that the presence of potential bugs significantly degrades the generation performance of the high-performing Code-LLMs. For instance, the passing rates of CodeGen-2B-mono on test cases of buggy-HumanEval drop more than 50% given a single potential bug in the context. Finally, we investigate several post-hoc methods for mitigating the adverse effect of potential bugs and find that there remains a large gap in post-mitigation performance.

In rapid release development processes, patches that fix critical issues, or implement high-value features are often promoted directly from the development channel to a stabilization channel, potentially skipping one or more stabilization channels. This practice is called patch uplift. Patch uplift is risky, because patches that are rushed through the stabilization phase can end up introducing regressions in the code. This paper examines patch uplift operations at Mozilla, with the aim to identify the characteristics of uplifted patches that introduce regressions. Through statistical and manual analyses, we quantitatively and qualitatively investigate the reasons behind patch uplift decisions and the characteristics of uplifted patches that introduced regressions. Additionally, we interviewed three Mozilla release managers to understand organizational factors that affect patch uplift decisions and outcomes. Results show that most patches are uplifted because of a wrong functionality or a crash. Uplifted patches that lead to faults tend to have larger patch size, and most of the faults are due to semantic or memory errors in the patches. Also, release managers are more inclined to accept patch uplift requests that concern certain specific components, and-or that are submitted by certain specific developers.

Not a day goes by without hearing about the impressive feats of large language models (LLMs), and equally, not a day passes without hearing about their challenges. LLMs are notoriously vulnerable to biases in their dataset, leading to issues such as toxicity. While domain-adaptive training has been employed to mitigate these issues, these techniques often address all model parameters indiscriminately during the repair process, resulting in poor repair quality and reduced model versatility. In this paper, we introduce a novel dynamic slicing-based intent-aware LLM repair strategy, IRepair. This approach selectively targets the most error-prone sections of the model for repair. Specifically, we propose dynamically slicing the model's most sensitive layers that require immediate attention, concentrating repair efforts on those areas. This method enables more effective repairs with potentially less impact on the model's overall performance by altering a smaller portion of the model. We evaluated our technique on three models from the GPT2 and GPT-Neo families, with parameters ranging from 800M to 1.6B, in a toxicity mitigation setup. Our results show that IRepair repairs errors 43.6% more effectively while causing 46% less disruption to general performance compared to the closest baseline, direct preference optimization. Our empirical analysis also reveals that errors are more concentrated in a smaller section of the model, with the top 20% of layers exhibiting 773% more error density than the remaining 80\%. This highlights the need for selective repair. Additionally, we demonstrate that a dynamic selection approach is essential for addressing errors dispersed throughout the model, ensuring a robust and efficient repair.

A fundamental skill among human developers is the ability to understand and reason about program execution. As an example, a programmer can mentally simulate code execution in natural language to debug and repair code (aka. rubber duck debugging). However, large language models (LLMs) of code are typically trained on the surface textual form of programs, thus may lack a semantic understanding of how programs execute at run-time. To address this issue, we propose NExT, a method to teach LLMs to inspect the execution traces of programs (variable states of executed lines) and reason about their run-time behavior through chain-of-thought (CoT) rationales. Specifically, NExT uses self-training to bootstrap a synthetic training set of execution-aware rationales that lead to correct task solutions (e.g., fixed programs) without laborious manual annotation. Experiments on program repair tasks based on MBPP and HumanEval demonstrate that NExT improves the fix rate of a PaLM 2 model, by 26.1% and 14.3% absolute, respectively, with significantly improved rationale quality as verified by automated metrics and human raters. Our model can also generalize to scenarios where program traces are absent at test-time.

Pretrained models are the standard starting point for training. This approach consistently outperforms the use of a random initialization. However, pretraining is a costly endeavour that few can undertake. In this paper, we create better base models at hardly any cost, by fusing multiple existing fine tuned models into one. Specifically, we fuse by averaging the weights of these models. We show that the fused model results surpass the pretrained model ones. We also show that fusing is often better than intertraining. We find that fusing is less dependent on the target task. Furthermore, weight decay nullifies intertraining effects but not those of fusing.

OpenAI's Codex, a GPT-3 like model trained on a large code corpus, has made headlines in and outside of academia. Given a short user-provided description, it is capable of synthesizing code snippets that are syntactically and semantically valid in most cases. In this work, we want to investigate whether Codex is able to localize and fix bugs, a task of central interest in the field of automated program repair. Our initial evaluation uses the multi-language QuixBugs benchmark (40 bugs in both Python and Java). We find that, despite not being trained for APR, Codex is surprisingly effective, and competitive with recent state of the art techniques. Our results also show that Codex is slightly more successful at repairing Python than Java.

Large language models (LLMs) and LLM-based Agents have been applied to fix bugs automatically, demonstrating the capability in addressing software defects by engaging in development environment interaction, iterative validation and code modification. However, systematic analysis of these agent and non-agent systems remain limited, particularly regarding performance variations among top-performing ones. In this paper, we examine seven proprietary and open-source systems on the SWE-bench Lite benchmark for automated bug fixing. We first assess each system's overall performance, noting instances solvable by all or none of these sytems, and explore why some instances are uniquely solved by specific system types. We also compare fault localization accuracy at file and line levels and evaluate bug reproduction capabilities, identifying instances solvable only through dynamic reproduction. Through analysis, we concluded that further optimization is needed in both the LLM itself and the design of Agentic flow to improve the effectiveness of the Agent in bug fixing.

Weight initialization plays an important role in neural network training. Widely used initialization methods are proposed and evaluated for networks that are trained from scratch. However, the growing number of pretrained models now offers new opportunities for tackling this classical problem of weight initialization. In this work, we introduce weight selection, a method for initializing smaller models by selecting a subset of weights from a pretrained larger model. This enables the transfer of knowledge from pretrained weights to smaller models. Our experiments demonstrate that weight selection can significantly enhance the performance of small models and reduce their training time. Notably, it can also be used together with knowledge distillation. Weight selection offers a new approach to leverage the power of pretrained models in resource-constrained settings, and we hope it can be a useful tool for training small models in the large-model era. Code is available at https://github.com/OscarXZQ/weight-selection.

Automated Program Repair (APR) can help developers automatically generate patches for bugs. Due to the impressive performance obtained using Large Pre-Trained Language Models (LLMs) on many code related tasks, researchers have started to directly use LLMs for APR. However, prior approaches simply repeatedly sample the LLM given the same constructed input/prompt created from the original buggy code, which not only leads to generating the same incorrect patches repeatedly but also miss the critical information in testcases. To address these limitations, we propose conversational APR, a new paradigm for program repair that alternates between patch generation and validation in a conversational manner. In conversational APR, we iteratively build the input to the model by combining previously generated patches with validation feedback. As such, we leverage the long-term context window of LLMs to not only avoid generating previously incorrect patches but also incorporate validation feedback to help the model understand the semantic meaning of the program under test. We evaluate 10 different LLM including the newly developed ChatGPT model to demonstrate the improvement of conversational APR over the prior LLM for APR approach.

As machine learning tools progress, the inevitable question arises: How can machine learning help us write better code? With significant progress being achieved in natural language processing with models like GPT-3 and Bert, the applications of natural language processing techniques to code are starting to be explored. Most of the research has been focused on automatic program repair (APR), and while the results on synthetic or highly filtered datasets are promising, such models are hard to apply in real-world scenarios because of inadequate bug localization. We propose BigIssue: a benchmark for realistic bug localization. The goal of the benchmark is two-fold. We provide (1) a general benchmark with a diversity of real and synthetic Java bugs and (2) a motivation to improve bug localization capabilities of models through attention to the full repository context. With the introduction of BigIssue, we hope to advance the state of the art in bug localization, in turn improving APR performance and increasing its applicability to the modern development cycle.

Program errors can occur in any type of programming, and can manifest in a variety of ways, such as unexpected output, crashes, or performance issues. And program error diagnosis can often be too abstract or technical for developers to understand, especially for beginners. The goal of this paper is to present a novel machine-learning approach for Multi-task Program Error Repair and Explanatory Diagnosis (mPRED). A pre-trained language model is used to encode the source code, and a downstream model is specifically designed to identify and repair errors. Programs and test cases will be augmented and optimized from several perspectives. Additionally, our approach incorporates a "chain of thoughts" method, which enables the models to produce intermediate reasoning explanations before providing the final correction. To aid in visualizing and analyzing the program structure, we use a graph neural network for program structure visualization. Overall, our approach offers a promising approach for repairing program errors across different programming languages and providing helpful explanations to programmers.

Automated program repair (APR) using deep learning techniques has become an important area of research in recent years, aiming to automatically generate bug-fixing patches that can improve software reliability and maintainability. However, most existing methods either target a single language or require high computational resources to train multilingual models. In this paper, we propose T5APR, a novel neural program repair approach that provides a unified solution for bug fixing across multiple programming languages. T5APR leverages CodeT5, a powerful pre-trained text-to-text transformer model, and adopts a checkpoint ensemble strategy to improve patch recommendation. We conduct comprehensive evaluations on six well-known benchmarks in four programming languages (Java, Python, C, JavaScript), demonstrating T5APR's competitiveness against state-of-the-art techniques. T5APR correctly fixes 1,985 bugs, including 1,442 bugs that none of the compared techniques has fixed. We further support the effectiveness of our approach by conducting detailed analyses, such as comparing the correct patch ranking among different techniques. The findings of this study demonstrate the potential of T5APR for use in real-world applications and highlight the importance of multilingual approaches in the field of APR.

Large Language Models (LLMs) have shown remarkable aptitude in code generation but still struggle on challenging programming tasks. Self-repair -- in which the model debugs and fixes mistakes in its own code -- has recently become a popular way to boost performance in these settings. However, only very limited studies on how and when self-repair works effectively exist in the literature, and one might wonder to what extent a model is really capable of providing accurate feedback on why the code is wrong when that code was generated by the same model. In this paper, we analyze GPT-3.5 and GPT-4's ability to perform self-repair on APPS, a challenging dataset consisting of diverse coding challenges. To do so, we first establish a new evaluation strategy dubbed pass@t that measures the pass rate of the tasks against the total number of tokens sampled from the model, enabling a fair comparison to purely sampling-based approaches. With this evaluation strategy, we find that the effectiveness of self-repair is only seen in GPT-4. We also observe that self-repair is bottlenecked by the feedback stage; using GPT-4 to give feedback on the programs generated by GPT-3.5 and using expert human programmers to give feedback on the programs generated by GPT-4, we unlock significant performance gains.

Automated generate-and-validate (G&V) program repair techniques typically rely on hard-coded rules, only fix bugs following specific patterns, and are hard to adapt to different programming languages. We propose ENCORE, a new G&V technique, which uses ensemble learning on convolutional neural machine translation (NMT) models to automatically fix bugs in multiple programming languages. We take advantage of the randomness in hyper-parameter tuning to build multiple models that fix different bugs and combine them using ensemble learning. This new convolutional NMT approach outperforms the standard long short-term memory (LSTM) approach used in previous work, as it better captures both local and long-distance connections between tokens. Our evaluation on two popular benchmarks, Defects4J and QuixBugs, shows that ENCORE fixed 42 bugs, including 16 that have not been fixed by existing techniques. In addition, ENCORE is the first G&V repair technique to be applied to four popular programming languages (Java, C++, Python, and JavaScript), fixing a total of 67 bugs across five benchmarks.

With the growing interest on Large Language Models (LLMs) for fault localization and program repair, ensuring the integrity and generalizability of the LLM-based methods becomes paramount. The code in existing widely-adopted benchmarks for these tasks was written before the the bloom of LLMs and may be included in the training data of existing popular LLMs, thereby suffering from the threat of data leakage, leading to misleadingly optimistic performance metrics. To address this issue, we introduce "ConDefects", a novel dataset of real faults meticulously curated to eliminate such overlap. ConDefects contains 1,254 Java faulty programs and 1,625 Python faulty programs. All these programs are sourced from the online competition platform AtCoder and were produced between October 2021 and September 2023. We pair each fault with fault locations and the corresponding repaired code versions, making it tailored for in fault localization and program repair related research. We also provide interfaces for selecting subsets based on different time windows and coding task difficulties. While inspired by LLM-based tasks, ConDefects can be adopted for benchmarking ALL types of fault localization and program repair methods. The dataset is publicly available, and a demo video can be found at https://www.youtube.com/watch?v=22j15Hj5ONk.

Graphic layout generation, a growing research field, plays a significant role in user engagement and information perception. Existing methods primarily treat layout generation as a numerical optimization task, focusing on quantitative aspects while overlooking the semantic information of layout, such as the relationship between each layout element. In this paper, we propose LayoutNUWA, the first model that treats layout generation as a code generation task to enhance semantic information and harness the hidden layout expertise of large language models~(LLMs). More concretely, we develop a Code Instruct Tuning (CIT) approach comprising three interconnected modules: 1) the Code Initialization (CI) module quantifies the numerical conditions and initializes them as HTML code with strategically placed masks; 2) the Code Completion (CC) module employs the formatting knowledge of LLMs to fill in the masked portions within the HTML code; 3) the Code Rendering (CR) module transforms the completed code into the final layout output, ensuring a highly interpretable and transparent layout generation procedure that directly maps code to a visualized layout. We attain significant state-of-the-art performance (even over 50\% improvements) on multiple datasets, showcasing the strong capabilities of LayoutNUWA. Our code is available at https://github.com/ProjectNUWA/LayoutNUWA.

Recently, multiple Automated Program Repair (APR) techniques based on Large Language Models (LLMs) have been proposed to enhance the repair performance. While these techniques mainly focus on the single-line or hunk-level repair, they face significant challenges in real-world application due to the limited repair task scope and costly statement-level fault localization. However, the more practical function-level APR, which broadens the scope of APR task to fix entire buggy functions and requires only cost-efficient function-level fault localization, remains underexplored. In this paper, we conduct the first comprehensive study of LLM-based function-level APR including investigating the effect of the few-shot learning mechanism and the auxiliary repair-relevant information. Specifically, we adopt six widely-studied LLMs and construct a benchmark in both the Defects4J 1.2 and 2.0 datasets. Our study demonstrates that LLMs with zero-shot learning are already powerful function-level APR techniques, while applying the few-shot learning mechanism leads to disparate repair performance. Moreover, we find that directly applying the auxiliary repair-relevant information to LLMs significantly increases function-level repair performance. Inspired by our findings, we propose an LLM-based function-level APR technique, namely SRepair, which adopts a dual-LLM framework to leverage the power of the auxiliary repair-relevant information for advancing the repair performance. The evaluation results demonstrate that SRepair can correctly fix 300 single-function bugs in the Defects4J dataset, largely surpassing all previous APR techniques by at least 85%, without the need for the costly statement-level fault location information. Furthermore, SRepair successfully fixes 32 multi-function bugs in the Defects4J dataset, which is the first time achieved by any APR technique ever to our best knowledge.

Preference learning enhances Code LLMs beyond supervised fine-tuning by leveraging relative quality comparisons. Existing methods construct preference pairs from candidates based on test case success, treating the higher pass rate sample as positive and the lower as negative. However, this approach does not pinpoint specific errors in the code, which prevents the model from learning more informative error correction patterns, as aligning failing code as a whole lacks the granularity needed to capture meaningful error-resolution relationships. To address these issues, we propose IterPref, a new preference alignment framework that mimics human iterative debugging to refine Code LLMs. IterPref explicitly locates error regions and aligns the corresponding tokens via a tailored DPO algorithm. To generate informative pairs, we introduce the CodeFlow dataset, where samples are iteratively refined until passing tests, with modifications capturing error corrections. Extensive experiments show that a diverse suite of Code LLMs equipped with IterPref achieves significant performance gains in code generation and improves on challenging tasks like BigCodeBench. In-depth analysis reveals that IterPref yields fewer errors. Our code and data will be made publicaly available.

Sequence-to-sequence models have been used to transform erroneous programs into correct ones when trained with a large enough dataset. Some recent studies also demonstrated strong empirical evidence that code review could improve the program repair further. Large language models, trained with Natural Language (NL) and Programming Language (PL), can contain inherent knowledge of both. In this study, we investigate if this inherent knowledge of PL and NL can be utilized to improve automated program repair. We applied PLBART and CodeT5, two state-of-the-art language models that are pre-trained with both PL and NL, on two such natural language-based program repair datasets and found that the pre-trained language models fine-tuned with datasets containing both code review and subsequent code changes notably outperformed each of the previous models. With the advent of code generative models like Codex and GPT-3.5-Turbo, we also performed zero-shot and few-shots learning-based prompt engineering to assess their performance on these datasets. However, the practical application of using LLMs in the context of automated program repair is still a long way off based on our manual analysis of the generated repaired codes by the learning models.

Finetuning large language models (LLMs) on instructions leads to vast performance improvements on natural language tasks. We apply instruction tuning using code, leveraging the natural structure of Git commits, which pair code changes with human instructions. We compile CommitPack: 4 terabytes of Git commits across 350 programming languages. We benchmark CommitPack against other natural and synthetic code instructions (xP3x, Self-Instruct, OASST) on the 16B parameter StarCoder model, and achieve state-of-the-art performance among models not trained on OpenAI outputs, on the HumanEval Python benchmark (46.2% pass@1). We further introduce HumanEvalPack, expanding the HumanEval benchmark to a total of 3 coding tasks (Code Repair, Code Explanation, Code Synthesis) across 6 languages (Python, JavaScript, Java, Go, C++, Rust). Our models, OctoCoder and OctoGeeX, achieve the best performance across HumanEvalPack among all permissive models, demonstrating CommitPack's benefits in generalizing to a wider set of languages and natural coding tasks. Code, models and data are freely available at https://github.com/bigcode-project/octopack.

Training a model for grammatical error correction (GEC) requires a set of labeled ungrammatical / grammatical sentence pairs, but manually annotating such pairs can be expensive. Recently, the Break-It-Fix-It (BIFI) framework has demonstrated strong results on learning to repair a broken program without any labeled examples, but this relies on a perfect critic (e.g., a compiler) that returns whether an example is valid or not, which does not exist for the GEC task. In this work, we show how to leverage a pretrained language model (LM) in defining an LM-Critic, which judges a sentence to be grammatical if the LM assigns it a higher probability than its local perturbations. We apply this LM-Critic and BIFI along with a large set of unlabeled sentences to bootstrap realistic ungrammatical / grammatical pairs for training a corrector. We evaluate our approach on GEC datasets across multiple domains (CoNLL-2014, BEA-2019, GMEG-wiki and GMEG-yahoo) and show that it outperforms existing methods in both the unsupervised setting (+7.7 F0.5) and the supervised setting (+0.5 F0.5).

Language models of code (LMs) work well when the surrounding code in the vicinity of generation provides sufficient context. This is not true when it becomes necessary to use types or functionality defined in another module or library, especially those not seen during training. LMs suffer from limited awareness of such global context and end up hallucinating, e.g., using types defined in other files incorrectly. Recent work tries to overcome this issue by retrieving global information to augment the local context. However, this bloats the prompt or requires architecture modifications and additional training. Integrated development environments (IDEs) assist developers by bringing the global context at their fingertips using static analysis. We extend this assistance, enjoyed by developers, to the LMs. We propose a notion of monitors that use static analysis in the background to guide the decoding. Unlike a priori retrieval, static analysis is invoked iteratively during the entire decoding process, providing the most relevant suggestions on demand. We demonstrate the usefulness of our proposal by monitoring for type-consistent use of identifiers whenever an LM generates code for object dereference. To evaluate our approach, we curate PragmaticCode, a dataset of open-source projects with their development environments. On models of varying parameter scale, we show that monitor-guided decoding consistently improves the ability of an LM to not only generate identifiers that match the ground truth but also improves compilation rates and agreement with ground truth. We find that LMs with fewer parameters, when guided with our monitor, can outperform larger LMs. With monitor-guided decoding, SantaCoder-1.1B achieves better compilation rate and next-identifier match than the much larger text-davinci-003 model. The datasets and code will be released at https://aka.ms/monitors4codegen .

Code completion has become an essential tool for daily software development. Existing evaluation benchmarks often employ static methods that do not fully capture the dynamic nature of real-world coding environments and face significant challenges, including limited context length, reliance on superficial evaluation metrics, and potential overfitting to training datasets. In this work, we introduce a novel framework for enhancing code completion in software development through the creation of a repository-level benchmark ExecRepoBench and the instruction corpora Repo-Instruct, aim at improving the functionality of open-source large language models (LLMs) in real-world coding scenarios that involve complex interdependencies across multiple files. ExecRepoBench includes 1.2K samples from active Python repositories. Plus, we present a multi-level grammar-based completion methodology conditioned on the abstract syntax tree to mask code fragments at various logical units (e.g. statements, expressions, and functions). Then, we fine-tune the open-source LLM with 7B parameters on Repo-Instruct to produce a strong code completion baseline model Qwen2.5-Coder-Instruct-C based on the open-source model. Qwen2.5-Coder-Instruct-C is rigorously evaluated against existing benchmarks, including MultiPL-E and ExecRepoBench, which consistently outperforms prior baselines across all programming languages. The deployment of can be used as a high-performance, local service for programming development\url{https://execrepobench.github.io/}.

Mainstream issue-resolving frameworks predominantly rely on commercial models, leading to high costs and privacy concerns. Existing training approaches for issue resolving struggle with poor generalization and fail to fully leverage open-source development resources. We propose Subtask-oriented Reinforced Fine-Tuning (SoRFT), a novel training approach to enhance the issue resolving capability of LLMs. We decomposes issue resolving into structured subtasks: file localization, function localization, line localization, and code edit generation. SoRFT consists of two training stages: (1) rejection-sampled supervised fine-tuning, Chain of Thought (CoT) data is filtered using ground-truth before fine-tuning the LLM, and (2) rule-based reinforcement learning, which leverages PPO with ground-truth based rewards. We evaluate the SoRFT-trained model on SWE-Bench Verified and SWE-Bench Lite, achieving state-of-the-art (SOTA) performance among open-source models (e.g., resolve 21.4% issues on SWE-Bench Verified with SoRFT-Qwen-7B). The experimental results demonstrate that SoRFT significantly enhances issue-resolving performance, improves model generalization, and provides a cost-efficient alternative to commercial models.

As software projects progress, quality of code assumes paramount importance as it affects reliability, maintainability and security of software. For this reason, static analysis tools are used in developer workflows to flag code quality issues. However, developers need to spend extra efforts to revise their code to improve code quality based on the tool findings. In this work, we investigate the use of (instruction-following) large language models (LLMs) to assist developers in revising code to resolve code quality issues. We present a tool, CORE (short for COde REvisions), architected using a pair of LLMs organized as a duo comprised of a proposer and a ranker. Providers of static analysis tools recommend ways to mitigate the tool warnings and developers follow them to revise their code. The proposer LLM of CORE takes the same set of recommendations and applies them to generate candidate code revisions. The candidates which pass the static quality checks are retained. However, the LLM may introduce subtle, unintended functionality changes which may go un-detected by the static analysis. The ranker LLM evaluates the changes made by the proposer using a rubric that closely follows the acceptance criteria that a developer would enforce. CORE uses the scores assigned by the ranker LLM to rank the candidate revisions before presenting them to the developer. CORE could revise 59.2% Python files (across 52 quality checks) so that they pass scrutiny by both a tool and a human reviewer. The ranker LLM is able to reduce false positives by 25.8% in these cases. CORE produced revisions that passed the static analysis tool in 76.8% Java files (across 10 quality checks) comparable to 78.3% of a specialized program repair tool, with significantly much less engineering efforts.

Mechanistic interpretability seeks to understand the internal mechanisms of machine learning models, where localization -- identifying the important model components -- is a key step. Activation patching, also known as causal tracing or interchange intervention, is a standard technique for this task (Vig et al., 2020), but the literature contains many variants with little consensus on the choice of hyperparameters or methodology. In this work, we systematically examine the impact of methodological details in activation patching, including evaluation metrics and corruption methods. In several settings of localization and circuit discovery in language models, we find that varying these hyperparameters could lead to disparate interpretability results. Backed by empirical observations, we give conceptual arguments for why certain metrics or methods may be preferred. Finally, we provide recommendations for the best practices of activation patching going forwards.

Automated program repair (APR) aims to help developers improve software reliability by generating patches for buggy programs. Although many code language models (CLM) are developed and effective in many software tasks such as code completion, there has been little comprehensive, in-depth work to evaluate CLMs' fixing capabilities and to fine-tune CLMs for the APR task. Firstly, this work is the first to evaluate ten CLMs on four APR benchmarks, which shows that surprisingly, the best CLM, as is, fixes 72% more bugs than the state-of-the-art deep-learning (DL)-based APR techniques. Secondly, one of the four APR benchmarks was created by us in this paper to avoid data leaking for a fair evaluation. Thirdly, it is the first work to fine-tune CLMs with APR training data, which shows that fine-tuning brings 31%-1,267% improvement to CLMs and enables them to fix 46%-164% more bugs than existing DL-based APR techniques. Fourthly, this work studies the impact of buggy lines, showing that CLMs, as is, cannot make good use of the buggy lines to fix bugs, yet fine-tuned CLMs could potentially over-rely on buggy lines. Lastly, this work analyzes the size, time, and memory efficiency of different CLMs. This work shows promising directions for the APR domain, such as fine-tuning CLMs with APR-specific designs, and also raises awareness of fair and comprehensive evaluations of CLMs and calls for more transparent reporting of open-source repositories used in the pre-training data to address the data leaking problem.

Recently, there has been a surge in face personalization techniques, benefiting from the advanced capabilities of pretrained text-to-image diffusion models. Among these, a notable method is Textual Inversion, which generates personalized images by inverting given images into textual embeddings. However, methods based on Textual Inversion still struggle with balancing the trade-off between reconstruction quality and editability. In this study, we examine this issue through the lens of initialization. Upon closely examining traditional initialization methods, we identified a significant disparity between the initial and learned embeddings in terms of both scale and orientation. The scale of the learned embedding can be up to 100 times greater than that of the initial embedding. Such a significant change in the embedding could increase the risk of overfitting, thereby compromising the editability. Driven by this observation, we introduce a novel initialization method, termed Cross Initialization, that significantly narrows the gap between the initial and learned embeddings. This method not only improves both reconstruction and editability but also reduces the optimization steps from 5000 to 320. Furthermore, we apply a regularization term to keep the learned embedding close to the initial embedding. We show that when combined with Cross Initialization, this regularization term can effectively improve editability. We provide comprehensive empirical evidence to demonstrate the superior performance of our method compared to the baseline methods. Notably, in our experiments, Cross Initialization is the only method that successfully edits an individual's facial expression. Additionally, a fast version of our method allows for capturing an input image in roughly 26 seconds, while surpassing the baseline methods in terms of both reconstruction and editability. Code will be made publicly available.

Commit messages are a valuable resource in comprehension of software evolution, since they provide a record of changes such as feature additions and bug repairs. Unfortunately, programmers often neglect to write good commit messages. Different techniques have been proposed to help programmers by automatically writing these messages. These techniques are effective at describing what changed, but are often verbose and lack context for understanding the rationale behind a change. In contrast, humans write messages that are short and summarize the high level rationale. In this paper, we adapt Neural Machine Translation (NMT) to automatically "translate" diffs into commit messages. We trained an NMT algorithm using a corpus of diffs and human-written commit messages from the top 1k Github projects. We designed a filter to help ensure that we only trained the algorithm on higher-quality commit messages. Our evaluation uncovered a pattern in which the messages we generate tend to be either very high or very low quality. Therefore, we created a quality-assurance filter to detect cases in which we are unable to produce good messages, and return a warning instead.

Program repair techniques offer cost-saving benefits for debugging within software development and programming education scenarios. With the proven effectiveness of Large Language Models (LLMs) in code-related tasks, researchers have explored their potential for program repair. However, it is crucial to recognize that existing repair benchmarks may have influenced LLM training data, potentially causing data leakage. To evaluate LLMs' realistic repair capabilities, (1) we introduce an extensive, non-crawled benchmark, referred to as TutorCode, comprising 1,239 C++ defect codes and associated information such as tutor guidance, solution description, failing test cases, and the corrected code. Our work assesses the repair performance of 12 LLMs on TutorCode, measuring repair correctness (TOP-5 and AVG-5) and patch precision (RPSR). (2) We then provide a comprehensive investigation into which types of extra information can help LLMs improve their performance in repairing defects. Among these types, tutor guidance was found to be the most effective information in enhancing LLM repair capabilities. To fully harness LLMs' conversational capabilities and the benefits of augmented information, (3) we introduce a novel conversational semi-automatic repair framework CREF assisting human tutor. It demonstrates a remarkable AVG-5 improvement of 17.2%-24.6% compared to the baseline, achieving an impressive AVG-5 of 76.6% when utilizing GPT-4. These results highlight the potential for enhancing LLMs' repair capabilities through interactions with tutors and historical conversations involving incorrect responses. The successful application of CREF in a real-world educational setting demonstrates its effectiveness in reducing tutors' workload and improving students' learning experience, while also showcasing its promise for facilitating other software engineering tasks, such as code review.

Layer-sequential unit-variance (LSUV) initialization - a simple method for weight initialization for deep net learning - is proposed. The method consists of the two steps. First, pre-initialize weights of each convolution or inner-product layer with orthonormal matrices. Second, proceed from the first to the final layer, normalizing the variance of the output of each layer to be equal to one. Experiment with different activation functions (maxout, ReLU-family, tanh) show that the proposed initialization leads to learning of very deep nets that (i) produces networks with test accuracy better or equal to standard methods and (ii) is at least as fast as the complex schemes proposed specifically for very deep nets such as FitNets (Romero et al. (2015)) and Highway (Srivastava et al. (2015)). Performance is evaluated on GoogLeNet, CaffeNet, FitNets and Residual nets and the state-of-the-art, or very close to it, is achieved on the MNIST, CIFAR-10/100 and ImageNet datasets.

Software engineering activities such as package migration, fixing errors reports from static analysis or testing, and adding type annotations or other specifications to a codebase, involve pervasively editing the entire repository of code. We formulate these activities as repository-level coding tasks. Recent tools like GitHub Copilot, which are powered by Large Language Models (LLMs), have succeeded in offering high-quality solutions to localized coding problems. Repository-level coding tasks are more involved and cannot be solved directly using LLMs, since code within a repository is inter-dependent and the entire repository may be too large to fit into the prompt. We frame repository-level coding as a planning problem and present a task-agnostic framework, called CodePlan to solve it. CodePlan synthesizes a multi-step chain of edits (plan), where each step results in a call to an LLM on a code location with context derived from the entire repository, previous code changes and task-specific instructions. CodePlan is based on a novel combination of an incremental dependency analysis, a change may-impact analysis and an adaptive planning algorithm. We evaluate the effectiveness of CodePlan on two repository-level tasks: package migration (C#) and temporal code edits (Python). Each task is evaluated on multiple code repositories, each of which requires inter-dependent changes to many files (between 2-97 files). Coding tasks of this level of complexity have not been automated using LLMs before. Our results show that CodePlan has better match with the ground truth compared to baselines. CodePlan is able to get 5/6 repositories to pass the validity checks (e.g., to build without errors and make correct code edits) whereas the baselines (without planning but with the same type of contextual information as CodePlan) cannot get any of the repositories to pass them.

Large language models (LLMs) have demonstrated an impressive ability to generate code for various programming tasks. In many instances, LLMs can generate a correct program for a task when given numerous trials. Consequently, a recent trend is to do large scale sampling of programs using a model and then filtering/ranking the programs based on the program execution on a small number of known unit tests to select one candidate solution. However, these approaches assume that the unit tests are given and assume the ability to safely execute the generated programs (which can do arbitrary dangerous operations such as file manipulations). Both of the above assumptions are impractical in real-world software development. In this paper, we propose CodeRanker, a neural ranker that can predict the correctness of a sampled program without executing it. Our CodeRanker is fault-aware i.e., it is trained to predict different kinds of execution information such as predicting the exact compile/runtime error type (e.g., an IndexError or a TypeError). We show that CodeRanker can significantly increase the pass@1 accuracy of various code generation models (including Codex, GPT-Neo, GPT-J) on APPS, HumanEval and MBPP datasets.

Researchers have made significant progress in automating the software development process in the past decades. Recent progress in Large Language Models (LLMs) has significantly impacted the development process, where developers can use LLM-based programming assistants to achieve automated coding. Nevertheless, software engineering involves the process of program improvement apart from coding, specifically to enable software maintenance (e.g. bug fixing) and software evolution (e.g. feature additions). In this paper, we propose an automated approach for solving GitHub issues to autonomously achieve program improvement. In our approach called AutoCodeRover, LLMs are combined with sophisticated code search capabilities, ultimately leading to a program modification or patch. In contrast to recent LLM agent approaches from AI researchers and practitioners, our outlook is more software engineering oriented. We work on a program representation (abstract syntax tree) as opposed to viewing a software project as a mere collection of files. Our code search exploits the program structure in the form of classes/methods to enhance LLM's understanding of the issue's root cause, and effectively retrieve a context via iterative search. The use of spectrum-based fault localization using tests, further sharpens the context, as long as a test-suite is available. Experiments on SWE-bench-lite (300 real-life GitHub issues) show increased efficacy in solving GitHub issues (19% on SWE-bench-lite), which is higher than the efficacy of the recently reported SWE-agent. In addition, AutoCodeRover achieved this efficacy with significantly lower cost (on average, $0.43 USD), compared to other baselines. We posit that our workflow enables autonomous software engineering, where, in future, auto-generated code from LLMs can be autonomously improved.

The goal of decompilation is to convert compiled low-level code (e.g., assembly code) back into high-level programming languages, enabling analysis in scenarios where source code is unavailable. This task supports various reverse engineering applications, such as vulnerability identification, malware analysis, and legacy software migration. The end-to-end decompile method based on large langauge models (LLMs) reduces reliance on additional tools and minimizes manual intervention due to its inherent properties. However, previous end-to-end methods often lose critical information necessary for reconstructing control flow structures and variables when processing binary files, making it challenging to accurately recover the program's logic. To address these issues, we propose the ReF Decompile method, which incorporates the following innovations: (1) The Relabelling strategy replaces jump target addresses with labels, preserving control flow clarity. (2) The Function Call strategy infers variable types and retrieves missing variable information from binary files. Experimental results on the Humaneval-Decompile Benchmark demonstrate that ReF Decompile surpasses comparable baselines and achieves state-of-the-art (SOTA) performance of 61.43%.

Decompilation transforms compiled code back into a high-level programming language for analysis when source code is unavailable. Previous work has primarily focused on enhancing decompilation performance by increasing the scale of model parameters or training data for pre-training. Based on the characteristics of the decompilation task, we propose two methods: (1) Without fine-tuning, the Self-Constructed Context Decompilation (sc^2dec) method recompiles the LLM's decompilation results to construct pairs for in-context learning, helping the model improve decompilation performance. (2) Fine-grained Alignment Enhancement (FAE), which meticulously aligns assembly code with source code at the statement level by leveraging debugging information, is employed during the fine-tuning phase to achieve further improvements in decompilation. By integrating these two methods, we achieved a Re-Executability performance improvement of approximately 7.35\% on the Decompile-Eval benchmark, establishing a new state-of-the-art performance of 55.03\%.

Bug localization, which is used to help programmers identify the location of bugs in source code, is an essential task in software development. Researchers have already made efforts to harness the powerful deep learning (DL) techniques to automate it. However, training bug localization model is usually challenging because it requires a large quantity of data labeled with the bug's exact location, which is difficult and time-consuming to collect. By contrast, obtaining bug detection data with binary labels of whether there is a bug in the source code is much simpler. This paper proposes a WEakly supervised bug LocaLization (WELL) method, which only uses the bug detection data with binary labels to train a bug localization model. With CodeBERT finetuned on the buggy-or-not binary labeled data, WELL can address bug localization in a weakly supervised manner. The evaluations on three method-level synthetic datasets and one file-level real-world dataset show that WELL is significantly better than the existing SOTA model in typical bug localization tasks such as variable misuse and other programming bugs.

The ability of CodeLLMs to generate executable and functionally correct code at the repository-level scale remains largely unexplored. We introduce RepoExec, a novel benchmark for evaluating code generation at the repository-level scale. RepoExec focuses on three main aspects: executability, functional correctness through automated test case generation with high coverage rate, and carefully crafted cross-file contexts to accurately generate code. Our work explores a controlled scenario where developers specify necessary code dependencies, challenging the model to integrate these accurately. Experiments show that while pretrained LLMs outperform instruction-tuned models in correctness, the latter excel in utilizing provided dependencies and demonstrating debugging capabilities. We also introduce a new instruction-tuned dataset that focuses on code dependencies and demonstrate that CodeLLMs fine-tuned on our dataset have a better capability to leverage these dependencies effectively. RepoExec aims to provide a comprehensive evaluation of code functionality and alignment with developer intent, paving the way for more reliable and applicable CodeLLMs in real-world scenarios. The dataset and source code can be found at~https://github.com/FSoft-AI4Code/RepoExec.

In recent years, instruction tuning has gained increasing attention and emerged as a crucial technique to enhance the capabilities of Large Language Models (LLMs). To construct high-quality instruction datasets, many instruction processing approaches have been proposed, aiming to achieve a delicate balance between data quantity and data quality. Nevertheless, due to inconsistencies that persist among various instruction processing methods, there is no standard open-source instruction processing implementation framework available for the community, which hinders practitioners from further developing and advancing. To facilitate instruction processing research and development, we present EasyInstruct, an easy-to-use instruction processing framework for LLMs, which modularizes instruction generation, selection, and prompting, while also considering their combination and interaction. EasyInstruct is publicly released and actively maintained at https://github.com/zjunlp/EasyInstruct, along with a running demo App at https://huggingface.co/spaces/zjunlp/EasyInstruct for quick-start, calling for broader research centered on instruction data.

We present Code Comparison Tuning (CCT), a simple and effective tuning method for code large language models (Code LLMs) to better handle subtle code errors. Specifically, we integrate the concept of comparison into instruction tuning, both at the token and sequence levels, enabling the model to discern even the slightest deviations in code. To compare the original code with an erroneous version containing manually added code errors, we use token-level preference loss for detailed token-level comparisons. Additionally, we combine code segments to create a new instruction tuning sample for sequence-level comparisons, enhancing the model's bug-fixing capability. Experimental results on the HumanEvalFix benchmark show that CCT surpasses instruction tuning in pass@1 scores by up to 4 points across diverse code LLMs, and extensive analysis demonstrates the effectiveness of our method.

Image inpainting has made significant advances in recent years. However, it is still challenging to recover corrupted images with both vivid textures and reasonable structures. Some specific methods only tackle regular textures while losing holistic structures due to the limited receptive fields of convolutional neural networks (CNNs). On the other hand, attention-based models can learn better long-range dependency for the structure recovery, but they are limited by the heavy computation for inference with large image sizes. To address these issues, we propose to leverage an additional structure restorer to facilitate the image inpainting incrementally. The proposed model restores holistic image structures with a powerful attention-based transformer model in a fixed low-resolution sketch space. Such a grayscale space is easy to be upsampled to larger scales to convey correct structural information. Our structure restorer can be integrated with other pretrained inpainting models efficiently with the zero-initialized residual addition. Furthermore, a masking positional encoding strategy is utilized to improve the performance with large irregular masks. Extensive experiments on various datasets validate the efficacy of our model compared with other competitors. Our codes are released in https://github.com/DQiaole/ZITS_inpainting.

Parameter-efficient fine-tuning (PEFT) has emerged as the predominant technique for fine-tuning in the era of large language models. However, existing PEFT methods still have inadequate training efficiency. Firstly, the utilization of large-scale foundation models during the training process is excessively redundant for certain fine-tuning tasks. Secondly, as the model size increases, the growth in trainable parameters of empirically added PEFT modules becomes non-negligible and redundant, leading to inefficiency. To achieve task-specific efficient fine-tuning, we propose the Light-PEFT framework, which includes two methods: Masked Early Pruning of the Foundation Model and Multi-Granularity Early Pruning of PEFT. The Light-PEFT framework allows for the simultaneous estimation of redundant parameters in both the foundation model and PEFT modules during the early stage of training. These parameters can then be pruned for more efficient fine-tuning. We validate our approach on GLUE, SuperGLUE, QA tasks, and various models. With Light-PEFT, parameters of the foundation model can be pruned by up to over 40%, while still controlling trainable parameters to be only 25% of the original PEFT method. Compared to utilizing the PEFT method directly, Light-PEFT achieves training and inference speedup, reduces memory usage, and maintains comparable performance and the plug-and-play feature of PEFT.

This work introduces a general code generation framework that incorporates infilling operations into auto-regressive decoding. Our approach capitalizes on the observation that recent code language models with infilling capabilities can perform self-infilling: whereas infilling operations aim to fill in the middle based on a predefined prefix and suffix, self-infilling sequentially generates both such surrounding context and the infilled content. We utilize this feature to develop an infilling-augmented decoding process that facilitates non-monotonic generation. This approach allows for postponing the generation of uncertain code snippets until a definitive suffix is established, leading to improved control over the generation sequence. In addition, it facilitates a looping mechanism, which can iteratively update and synchronize each piece of generation in a cyclic manner. Extensive experiments are conducted to demonstrate that our proposed decoding process is effective in enhancing regularity and quality across several code generation benchmarks.

Large Language Models (LLMs) have been gaining increasing attention and demonstrated promising performance across a variety of Software Engineering (SE) tasks, such as Automated Program Repair (APR), code summarization, and code completion. For example, ChatGPT, the latest black-box LLM, has been investigated by numerous recent research studies and has shown impressive performance in various tasks. However, there exists a potential risk of data leakage since these LLMs are usually close-sourced with unknown specific training details, e.g., pre-training datasets. In this paper, we seek to review the bug-fixing capabilities of ChatGPT on a clean APR benchmark with different research objectives. We first introduce {\benchmark}, a new benchmark with buggy and the corresponding fixed programs from competitive programming problems starting from 2023, after the training cutoff point of ChatGPT. The results on {\benchmark} show that ChatGPT is able to fix 109 out of 151 buggy programs using the basic prompt within 35 independent rounds, outperforming state-of-the-art LLMs CodeT5 and PLBART by 27.5\% and 62.4\% prediction accuracy. We also investigate the impact of three types of prompts, i.e., problem description, error feedback, and bug localization, leading to additional 34 fixed bugs. Besides, we provide additional discussion from the interactive nature of ChatGPT to illustrate the capacity of a dialog-based repair workflow with 9 additional fixed bugs. Inspired by the findings, we further pinpoint various challenges and opportunities for advanced SE study equipped with such LLMs (e.g.,~ChatGPT) in the near future. More importantly, our work calls for more research on the reevaluation of the achievements obtained by existing black-box LLMs across various SE tasks, not limited to ChatGPT on APR.

Current language models tailored for code tasks often adopt the pre-training-then-fine-tuning paradigm from natural language processing, modeling source code as plain text. This approach, however, overlooks the unambiguous structures inherent in programming languages. In this work, we explore data-efficient adaptation of pre-trained code models by further pre-training and fine-tuning them with program structures. Specifically, we represent programs as parse trees -- also known as concrete syntax trees (CSTs) -- and adapt pre-trained models on serialized CSTs. Although the models that we adapt have been pre-trained only on the surface form of programs, we find that a small amount of continual pre-training and fine-tuning on CSTs without changing the model architecture yields improvements over the baseline approach across various code tasks. The improvements are found to be particularly significant when there are limited training examples, demonstrating the effectiveness of integrating program structures with plain-text representation even when working with backbone models that have not been pre-trained with structures.

API misuses often lead to software bugs, crashes, and vulnerabilities. While several API misuse detectors have been proposed, there are no automatic repair tools specifically designed for this purpose. In a recent study, test-suite-based automatic program repair (APR) tools were found to be ineffective in repairing API misuses. Still, since the study focused on non-learning-aided APR tools, it remains unknown whether learning-aided APR tools are capable of fixing API misuses. In recent years, pre-trained language models (PLMs) have succeeded greatly in many natural language processing tasks. There is a rising interest in applying PLMs to APR. However, there has not been any study that investigates the effectiveness of PLMs in repairing API misuse. To fill this gap, we conduct a comprehensive empirical study on 11 learning-aided APR tools, which include 9 of the state-of-the-art general-purpose PLMs and two APR tools. We evaluate these models with an API-misuse repair dataset, consisting of two variants. Our results show that PLMs perform better than the studied APR tools in repairing API misuses. Among the 9 pre-trained models tested, CodeT5 is the best performer in the exact match. We also offer insights and potential exploration directions for future research.

Automated source code refactoring, particularly extract method refactoring, is a crucial and frequently employed technique during software development. Despite its importance and frequent use by practitioners, current automated techniques face significant limitations. These approaches often rely on developers to identify the precise bounds of refactoring opportunities in terms of source code statements. Also, they often do not capture the semantic context, resulting in offering no automated means to suggest meaningful method name, for instance. To address these challenges, we propose a novel reinforcement learning-based approach for fine-tuning and aligning code language models to perform automated, intelligent extract method refactoring on Java source code. Our approach fine-tunes sequence-to-sequence generative models and aligns them using the Proximal Policy Optimization (PPO) algorithm. We utilize code compilation and presence of the refactoring in the generated code as reward signals, providing a code-centric optimization process. Our experiments demonstrate that our approach significantly enhances the performance of large language models in code refactoring, as evidenced by both quantitative evaluation metrics such as BLEU, ROUGE, and CodeBLEU, and qualitative measures including syntactical and functional correctness. The supervised fine-tuned model, further aligned with PPO, surpasses traditional supervised fine-tuning by 11.96% and 16.45% in terms of BLEU and CodeBLEU scores, respectively. When subjected to a suite of 122 unit tests, the number of successful tests increased from 41 to 66 for the reinforcement learning aligned fine-tuned Code-T5 model, highlighting the effectiveness of our approach in producing functionally correct refactorings.

Recently, bound propagation based certified robust training methods have been proposed for training neural networks with certifiable robustness guarantees. Despite that state-of-the-art (SOTA) methods including interval bound propagation (IBP) and CROWN-IBP have per-batch training complexity similar to standard neural network training, they usually use a long warmup schedule with hundreds or thousands epochs to reach SOTA performance and are thus still costly. In this paper, we identify two important issues in existing methods, namely exploded bounds at initialization, and the imbalance in ReLU activation states and improve IBP training. These two issues make certified training difficult and unstable, and thereby long warmup schedules were needed in prior works. To mitigate these issues and conduct faster certified training with shorter warmup, we propose three improvements based on IBP training: 1) We derive a new weight initialization method for IBP training; 2) We propose to fully add Batch Normalization (BN) to each layer in the model, since we find BN can reduce the imbalance in ReLU activation states; 3) We also design regularization to explicitly tighten certified bounds and balance ReLU activation states during wamrup. We are able to obtain 65.03% verified error on CIFAR-10 (epsilon=8{255}) and 82.36% verified error on TinyImageNet (epsilon=1{255}) using very short training schedules (160 and 80 total epochs, respectively), outperforming literature SOTA trained with hundreds or thousands epochs under the same network architecture. The code is available at https://github.com/shizhouxing/Fast-Certified-Robust-Training.

Large language models (LLMs) have achieved impressive performance on code generation. However, for complex programming tasks, generating the correct solution in one go becomes challenging, thus some prior works have designed program repair approaches to improve code generation performance. In this work, we propose Self-Debugging, which teaches a large language model to debug its predicted program via few-shot demonstrations. In particular, we demonstrate that Self-Debugging can teach the large language model to perform rubber duck debugging; i.e., without any feedback on the code correctness or error messages, the model is able to identify its mistakes by explaining the generated code in natural language. Self-Debugging achieves the state-of-the-art performance on several code generation benchmarks, including the Spider dataset for text-to-SQL generation, TransCoder for C++-to-Python translation, and MBPP for text-to-Python generation. On the Spider benchmark where there are no unit tests to verify the correctness of predictions, Self-Debugging with code explanation consistently improves the baseline by 2-3%, and improves the prediction accuracy on problems of the hardest label by 9%. On TransCoder and MBPP where unit tests are available, Self-Debugging improves the baseline accuracy by up to 12%. Meanwhile, by leveraging feedback messages and reusing failed predictions, Self-Debugging notably improves sample efficiency, and can match or outperform baseline models that generate more than 10x candidate programs.

Code localization--identifying precisely where in a codebase changes need to be made--is a fundamental yet challenging task in software maintenance. Existing approaches struggle to efficiently navigate complex codebases when identifying relevant code sections. The challenge lies in bridging natural language problem descriptions with the appropriate code elements, often requiring reasoning across hierarchical structures and multiple dependencies. We introduce LocAgent, a framework that addresses code localization through graph-based representation. By parsing codebases into directed heterogeneous graphs, LocAgent creates a lightweight representation that captures code structures (files, classes, functions) and their dependencies (imports, invocations, inheritance), enabling LLM agents to effectively search and locate relevant entities through powerful multi-hop reasoning. Experimental results on real-world benchmarks demonstrate that our approach significantly enhances accuracy in code localization. Notably, our method with the fine-tuned Qwen-2.5-Coder-Instruct-32B model achieves comparable results to SOTA proprietary models at greatly reduced cost (approximately 86% reduction), reaching up to 92.7% accuracy on file-level localization while improving downstream GitHub issue resolution success rates by 12% for multiple attempts (Pass@10). Our code is available at https://github.com/gersteinlab/LocAgent.

Recent years have seen the rise of Deep Learning (DL) techniques applied to source code. Researchers have exploited DL to automate several development and maintenance tasks, such as writing commit messages, generating comments and detecting vulnerabilities among others. One of the long lasting dreams of applying DL to source code is the possibility to automate non-trivial coding activities. While some steps in this direction have been taken (e.g., learning how to fix bugs), there is still a glaring lack of empirical evidence on the types of code changes that can be learned and automatically applied by DL. Our goal is to make this first important step by quantitatively and qualitatively investigating the ability of a Neural Machine Translation (NMT) model to learn how to automatically apply code changes implemented by developers during pull requests. We train and experiment with the NMT model on a set of 236k pairs of code components before and after the implementation of the changes provided in the pull requests. We show that, when applied in a narrow enough context (i.e., small/medium-sized pairs of methods before/after the pull request changes), NMT can automatically replicate the changes implemented by developers during pull requests in up to 36% of the cases. Moreover, our qualitative analysis shows that the model is capable of learning and replicating a wide variety of meaningful code changes, especially refactorings and bug-fixing activities. Our results pave the way for novel research in the area of DL on code, such as the automatic learning and applications of refactoring.

LLMs have long demonstrated remarkable effectiveness in automatic program repair (APR), with OpenAI's ChatGPT being one of the most widely used models in this domain. Through continuous iterations and upgrades of GPT-family models, their performance in fixing bugs has already reached state-of-the-art levels. However, there are few works comparing the effectiveness and variations of different versions of GPT-family models on APR. In this work, inspired by the recent public release of the GPT-o1 models, we conduct the first study to compare the effectiveness of different versions of the GPT-family models in APR. We evaluate the performance of the latest version of the GPT-family models (i.e., O1-preview and O1-mini), GPT-4o, and the historical version of ChatGPT on APR. We conduct an empirical study of the four GPT-family models against other LLMs and APR techniques on the QuixBugs benchmark from multiple evaluation perspectives, including repair success rate, repair cost, response length, and behavior patterns. The results demonstrate that O1's repair capability exceeds that of prior GPT-family models, successfully fixing all 40 bugs in the benchmark. Our work can serve as a foundation for further in-depth exploration of the applications of GPT-family models in APR.

Large language models (LLMs) have demonstrated an impressive ability to generate codes on competitive programming tasks. However, with limited sample numbers, LLMs still suffer from poor accuracy. Inspired by the process of human programming, we propose a generate-and-edit approach named Self-Edit that utilizes execution results of the generated code from LLMs to improve the code quality on the competitive programming task. We execute the generated code on the example test case provided in the question and wrap execution results into a supplementary comment. Utilizing this comment as guidance, our fault-aware code editor is employed to correct errors in the generated code. We perform extensive evaluations across two competitive programming datasets with nine different LLMs. Compared to directly generating from LLMs, our approach can improve the average of pass@1 by 89\% on APPS-dev, 31\% on APPS-test, and 48\% on HumanEval over nine popular code generation LLMs with parameter sizes ranging from 110M to 175B. Compared to other post-processing methods, our method demonstrates superior accuracy and efficiency.

In this study, we evaluated the capability of Large Language Models (LLMs), particularly OpenAI's GPT-4, in detecting software vulnerabilities, comparing their performance against traditional static code analyzers like Snyk and Fortify. Our analysis covered numerous repositories, including those from NASA and the Department of Defense. GPT-4 identified approximately four times the vulnerabilities than its counterparts. Furthermore, it provided viable fixes for each vulnerability, demonstrating a low rate of false positives. Our tests encompassed 129 code samples across eight programming languages, revealing the highest vulnerabilities in PHP and JavaScript. GPT-4's code corrections led to a 90% reduction in vulnerabilities, requiring only an 11% increase in code lines. A critical insight was LLMs' ability to self-audit, suggesting fixes for their identified vulnerabilities and underscoring their precision. Future research should explore system-level vulnerabilities and integrate multiple static code analyzers for a holistic perspective on LLMs' potential.

With the recent advancement of Large Language Models (LLMs), generating functionally correct code has become less complicated for a wide array of developers. While using LLMs has sped up the functional development process, it poses a heavy risk to code security. Code generation with proper security measures using LLM is a significantly more challenging task than functional code generation. Security measures may include adding a pair of lines of code with the original code, consisting of null pointer checking or prepared statements for SQL injection prevention. Currently, available code repair LLMs generate code repair by supervised fine-tuning, where the model looks at cross-entropy loss. However, the original and repaired codes are mostly similar in functionality and syntactically, except for a few (1-2) lines, which act as security measures. This imbalance between the lines needed for security measures and the functional code enforces the supervised fine-tuned model to prioritize generating functional code without adding proper security measures, which also benefits the model by resulting in minimal loss. Therefore, in this work, for security hardening and strengthening of generated code from LLMs, we propose a reinforcement learning-based method for program-specific repair with the combination of semantic and syntactic reward mechanisms that focus heavily on adding security and functional measures in the code, respectively.

Adapting large-scale pretrained language models to downstream tasks via fine-tuning is the standard method for achieving state-of-the-art performance on NLP benchmarks. However, fine-tuning all weights of models with millions or billions of parameters is sample-inefficient, unstable in low-resource settings, and wasteful as it requires storing a separate copy of the model for each task. Recent work has developed parameter-efficient fine-tuning methods, but these approaches either still require a relatively large number of parameters or underperform standard fine-tuning. In this work, we propose Compacter, a method for fine-tuning large-scale language models with a better trade-off between task performance and the number of trainable parameters than prior work. Compacter accomplishes this by building on top of ideas from adapters, low-rank optimization, and parameterized hypercomplex multiplication layers. Specifically, Compacter inserts task-specific weight matrices into a pretrained model's weights, which are computed efficiently as a sum of Kronecker products between shared "slow" weights and "fast" rank-one matrices defined per Compacter layer. By only training 0.047% of a pretrained model's parameters, Compacter performs on par with standard fine-tuning on GLUE and outperforms standard fine-tuning on SuperGLUE and low-resource settings. Our code is publicly available at~https://github.com/rabeehk/compacter.

Pre-trained code language models have achieved promising performance in code generation and improved the programming efficiency of human developers. However, their self-refinement capability is typically overlooked by the existing evaluations of code LMs, which focus only on the accuracy of the one-time prediction. For the cases when code LMs fail to implement the correct program, developers actually find it hard to debug and fix the faulty prediction since it is not written by the developers themselves. Unfortunately, our study reveals that code LMs cannot efficiently self-refine their faulty generations as well. In this paper, we propose CYCLE framework, learning to self-refine the faulty generation according to the available feedback, such as the execution results reported by the test suites. We evaluate CYCLE on three popular code generation benchmarks, HumanEval, MBPP, and APPS. The results reveal that CYCLE successfully maintains, sometimes improves, the quality of one-time code generation, while significantly improving the self-refinement capability of code LMs. We implement four variants of CYCLE with varied numbers of parameters across 350M, 1B, 2B, and 3B, and the experiments show that CYCLE consistently boosts the code generation performance, by up to 63.5%, across benchmarks and varied model sizes. We also notice that CYCLE outperforms code LMs that have 3times more parameters in self-refinement.

Deep neural networks are usually initialized with random weights, with adequately selected initial variance to ensure stable signal propagation during training. However, selecting the appropriate variance becomes challenging especially as the number of layers grows. In this work, we replace random weight initialization with a fully deterministic initialization scheme, viz., ZerO, which initializes the weights of networks with only zeros and ones (up to a normalization factor), based on identity and Hadamard transforms. Through both theoretical and empirical studies, we demonstrate that ZerO is able to train networks without damaging their expressivity. Applying ZerO on ResNet achieves state-of-the-art performance on various datasets, including ImageNet, which suggests random weights may be unnecessary for network initialization. In addition, ZerO has many benefits, such as training ultra deep networks (without batch-normalization), exhibiting low-rank learning trajectories that result in low-rank and sparse solutions, and improving training reproducibility.

A good initialization of deep learning models is essential since it can help them converge better and faster. However, pretraining large models is unaffordable for many researchers, which makes a desired prediction for initial parameters more necessary nowadays. Graph HyperNetworks (GHNs), one approach to predicting model parameters, have recently shown strong performance in initializing large vision models. Unfortunately, predicting parameters of very wide networks relies on copying small chunks of parameters multiple times and requires an extremely large number of parameters to support full prediction, which greatly hinders its adoption in practice. To address this limitation, we propose LoGAH (Low-rank GrAph Hypernetworks), a GHN with a low-rank parameter decoder that expands to significantly wider networks without requiring as excessive increase of parameters as in previous attempts. LoGAH allows us to predict the parameters of 774-million large neural networks in a memory-efficient manner. We show that vision and language models (i.e., ViT and GPT-2) initialized with LoGAH achieve better performance than those initialized randomly or using existing hypernetworks. Furthermore, we show promising transfer learning results w.r.t. training LoGAH on small datasets and using the predicted parameters to initialize for larger tasks. We provide the codes in https://github.com/Blackzxy/LoGAH .

The advent of instruction-tuned Large Language Models designed for coding tasks (Code LLMs) has transformed software engineering practices. However, their robustness against various input challenges remains a critical concern. This study introduces DegradePrompter, a novel method designed to systematically evaluate the robustness of instruction-tuned Code LLMs. We assess the impact of diverse input challenges on the functionality and correctness of generated code using rigorous metrics and established benchmarks. Our comprehensive evaluation includes five state-of-the-art open-source models and three production-grade closed-source models, revealing varying degrees of robustness. Open-source models demonstrate an increased susceptibility to input perturbations, resulting in declines in functional correctness ranging from 12% to 34%. In contrast, commercial models demonstrate relatively greater resilience, with performance degradation ranging from 3% to 24%. To enhance the robustness of the models against these vulnerabilities, we investigate a straightforward yet effective mitigation strategy. Our findings highlight the need for robust defense mechanisms and comprehensive evaluations during both the development and deployment phases to ensure the resilience and reliability of automated code generation systems.

We present SuperCoder2.0, an advanced autonomous system designed to enhance software development through artificial intelligence. The system combines an AI-native development approach with intelligent agents to enable fully autonomous coding. Key focus areas include a retry mechanism with error output traceback, comprehensive code rewriting and replacement using Abstract Syntax Tree (ast) parsing to minimize linting issues, code embedding technique for retrieval-augmented generation, and a focus on localizing methods for problem-solving rather than identifying specific line numbers. The methodology employs a three-step hierarchical search space reduction approach for code base navigation and bug localization:utilizing Retrieval Augmented Generation (RAG) and a Repository File Level Map to identify candidate files, (2) narrowing down to the most relevant files using a File Level Schematic Map, and (3) extracting 'relevant locations' within these files. Code editing is performed through a two-part module comprising CodeGeneration and CodeEditing, which generates multiple solutions at different temperature values and replaces entire methods or classes to maintain code integrity. A feedback loop executes repository-level test cases to validate and refine solutions. Experiments conducted on the SWE-bench Lite dataset demonstrate SuperCoder2.0's effectiveness, achieving correct file localization in 84.33% of cases within the top 5 candidates and successfully resolving 34% of test instances. This performance places SuperCoder2.0 fourth globally on the SWE-bench leaderboard. The system's ability to handle diverse repositories and problem types highlights its potential as a versatile tool for autonomous software development. Future work will focus on refining the code editing process and exploring advanced embedding models for improved natural language to code mapping.

We introduce XFT, a simple yet powerful training scheme, by simply merging upcycled Mixture-of-Experts (MoE) to unleash the performance limit of instruction-tuned code Large Language Models (LLMs). While vanilla sparse upcycling fails to improve instruction tuning, XFT introduces a shared expert mechanism with a novel routing weight normalization strategy into sparse upcycling, which significantly boosts instruction tuning. After fine-tuning the upcycled MoE model, XFT introduces a learnable model merging mechanism to compile the upcycled MoE model back to a dense model, achieving upcycled MoE-level performance with only dense-model compute. By applying XFT to a 1.3B model, we create a new state-of-the-art tiny code LLM (<3B) with 67.1 and 64.6 pass@1 on HumanEval and HumanEval+ respectively. With the same data and model architecture, XFT improves supervised fine-tuning (SFT) by 13% on HumanEval+, along with consistent improvements from 2% to 13% on MBPP+, MultiPL-E, and DS-1000, demonstrating its generalizability. XFT is fully orthogonal to existing techniques such as Evol-Instruct and OSS-Instruct, opening a new dimension for improving code instruction tuning. Codes are available at https://github.com/ise-uiuc/xft .

Automated Program Repair (APR) improves developer productivity by saving debugging and bug-fixing time. While APR has been extensively explored for C/C++ and Java programs, there is little research on bugs in PHP programs due to the lack of a benchmark PHP bug dataset. This is surprising given that PHP has been one of the most widely used server-side languages for over two decades, being used in a variety of contexts such as e-commerce, social networking, and content management. This paper presents a benchmark dataset of PHP bugs on real-world applications called BUGSPHP, which can enable research on analysis, testing, and repair for PHP programs. The dataset consists of training and test datasets, separately curated from GitHub and processed locally. The training dataset includes more than 600,000 bug-fixing commits. The test dataset contains 513 manually validated bug-fixing commits equipped with developer-provided test cases to assess patch correctness.

Security vulnerability repair is a difficult task that is in dire need of automation. Two groups of techniques have shown promise: (1) large code language models (LLMs) that have been pre-trained on source code for tasks such as code completion, and (2) automated program repair (APR) techniques that use deep learning (DL) models to automatically fix software bugs. This paper is the first to study and compare Java vulnerability repair capabilities of LLMs and DL-based APR models. The contributions include that we (1) apply and evaluate five LLMs (Codex, CodeGen, CodeT5, PLBART and InCoder), four fine-tuned LLMs, and four DL-based APR techniques on two real-world Java vulnerability benchmarks (Vul4J and VJBench), (2) design code transformations to address the training and test data overlapping threat to Codex, (3) create a new Java vulnerability repair benchmark VJBench, and its transformed version VJBench-trans and (4) evaluate LLMs and APR techniques on the transformed vulnerabilities in VJBench-trans. Our findings include that (1) existing LLMs and APR models fix very few Java vulnerabilities. Codex fixes 10.2 (20.4%), the most number of vulnerabilities. (2) Fine-tuning with general APR data improves LLMs' vulnerability-fixing capabilities. (3) Our new VJBench reveals that LLMs and APR models fail to fix many Common Weakness Enumeration (CWE) types, such as CWE-325 Missing cryptographic step and CWE-444 HTTP request smuggling. (4) Codex still fixes 8.3 transformed vulnerabilities, outperforming all the other LLMs and APR models on transformed vulnerabilities. The results call for innovations to enhance automated Java vulnerability repair such as creating larger vulnerability repair training data, tuning LLMs with such data, and applying code simplification transformation to facilitate vulnerability repair.

In theoretical neuroscience, recent work leverages deep learning tools to explore how some network attributes critically influence its learning dynamics. Notably, initial weight distributions with small (resp. large) variance may yield a rich (resp. lazy) regime, where significant (resp. minor) changes to network states and representation are observed over the course of learning. However, in biology, neural circuit connectivity could exhibit a low-rank structure and therefore differs markedly from the random initializations generally used for these studies. As such, here we investigate how the structure of the initial weights -- in particular their effective rank -- influences the network learning regime. Through both empirical and theoretical analyses, we discover that high-rank initializations typically yield smaller network changes indicative of lazier learning, a finding we also confirm with experimentally-driven initial connectivity in recurrent neural networks. Conversely, low-rank initialization biases learning towards richer learning. Importantly, however, as an exception to this rule, we find lazier learning can still occur with a low-rank initialization that aligns with task and data statistics. Our research highlights the pivotal role of initial weight structures in shaping learning regimes, with implications for metabolic costs of plasticity and risks of catastrophic forgetting.

Most existing pre-trained language models for source code focus on learning the static code text, typically augmented with static code structures (abstract syntax tree, dependency graphs, etc.). However, program semantics will not be fully exposed before the real execution. Without an understanding of the program execution, statically pre-trained models fail to comprehensively capture the dynamic code properties, such as the branch coverage and the runtime variable values, and they are consequently less effective at code understanding tasks, such as retrieving semantic clones and detecting software vulnerabilities. To close the gap between the static nature of language models and the dynamic characteristics of programs, we introduce TRACED, an execution-aware pre-training strategy for source code. Specifically, we pre-train code language models with a combination of source code, executable inputs, and corresponding execution traces. Our goal is to teach code models the complicated execution logic during the pre-training, enabling the model to statically estimate the dynamic code properties without repeatedly executing code during task-specific fine-tuning. To illustrate the effectiveness of our proposed approach, we fine-tune and evaluate TRACED on three downstream tasks: static execution estimation, clone retrieval, and vulnerability detection. The empirical results show that TRACED relatively improves the statically pre-trained code models by 12.4% for complete execution path prediction and by 25.2% for runtime variable value predictions. TRACED also significantly outperforms statically pre-trained models in clone retrieval and vulnerability detection across four public benchmarks.

We propose a novel dynamic safety framework that optimizes language model (LM) safety reasoning at inference time without modifying model weights. Building on recent advances in self-critique methods, our approach leverages a meta-critique mechanism that iteratively updates safety prompts-termed specifications-to drive the critique and revision process adaptively. This test-time optimization not only improves performance against adversarial jailbreak requests but also in diverse general safety-related tasks, such as avoiding moral harm or pursuing honest responses. Our empirical evaluations across several language models demonstrate that dynamically optimized safety prompts yield significantly higher safety scores compared to fixed system prompts and static self-critique defenses. Code to be released at https://github.com/vicgalle/meta-self-critique.git .

Developers often dedicate significant time to maintaining and refactoring existing code. However, most prior work on generative models for code focuses solely on creating new code, overlooking the distinctive needs of editing existing code. In this work, we explore a multi-round code auto-editing setting, aiming to predict edits to a code region based on recent changes within the same codebase. Our model, Coeditor, is a fine-tuned language model specifically designed for code editing tasks. We represent code changes using a line diff format and employ static analysis to form large customized model contexts, ensuring the availability of appropriate information for prediction. We collect a code editing dataset from the commit histories of 1650 open-source Python projects for training and evaluation. In a simplified single-round, single-edit task, Coeditor significantly outperforms GPT-3.5 and SOTA open-source code completion models (bringing exact-match accuracy from 34.7 up to 60.4), demonstrating the benefits of incorporating editing history for code completion. In a multi-round, multi-edit setting, we observe substantial gains by iteratively conditioning on additional user edits. We have open-sourced our code, data, and model weights to encourage future research and have released a VSCode extension powered by our model for interactive IDE usage.

While large pre-trained models have enabled impressive results on a variety of downstream tasks, the largest existing models still make errors, and even accurate predictions may become outdated over time. Because detecting all such failures at training time is impossible, enabling both developers and end users of such models to correct inaccurate outputs while leaving the model otherwise intact is desirable. However, the distributed, black-box nature of the representations learned by large neural networks makes producing such targeted edits difficult. If presented with only a single problematic input and new desired output, fine-tuning approaches tend to overfit; other editing algorithms are either computationally infeasible or simply ineffective when applied to very large models. To enable easy post-hoc editing at scale, we propose Model Editor Networks using Gradient Decomposition (MEND), a collection of small auxiliary editing networks that use a single desired input-output pair to make fast, local edits to a pre-trained model's behavior. MEND learns to transform the gradient obtained by standard fine-tuning, using a low-rank decomposition of the gradient to make the parameterization of this transformation tractable. MEND can be trained on a single GPU in less than a day even for 10 billion+ parameter models; once trained MEND enables rapid application of new edits to the pre-trained model. Our experiments with T5, GPT, BERT, and BART models show that MEND is the only approach to model editing that effectively edits the behavior of models with more than 10 billion parameters. Code and data available at https://sites.google.com/view/mend-editing.

We consider the task of mapping pseudocode to long programs that are functionally correct. Given test cases as a mechanism to validate programs, we search over the space of possible translations of the pseudocode to find a program that passes the validation. However, without proper credit assignment to localize the sources of program failures, it is difficult to guide search toward more promising programs. We propose to perform credit assignment based on signals from compilation errors, which constitute 88.7% of program failures. Concretely, we treat the translation of each pseudocode line as a discrete portion of the program, and whenever a synthesized program fails to compile, an error localization method tries to identify the portion of the program responsible for the failure. We then focus search over alternative translations of the pseudocode for those portions. For evaluation, we collected the SPoC dataset (Search-based Pseudocode to Code) containing 18,356 programs with human-authored pseudocode and test cases. Under a budget of 100 program compilations, performing search improves the synthesis success rate over using the top-one translation of the pseudocode from 25.6% to 44.7%.

Large language models (LLMs), such as OpenAI's Codex, have demonstrated their potential to generate code from natural language descriptions across a wide range of programming tasks. Several benchmarks have recently emerged to evaluate the ability of LLMs to generate functionally correct code from natural language intent with respect to a set of hidden test cases. This has enabled the research community to identify significant and reproducible advancements in LLM capabilities. However, there is currently a lack of benchmark datasets for assessing the ability of LLMs to generate functionally correct code edits based on natural language descriptions of intended changes. This paper aims to address this gap by motivating the problem NL2Fix of translating natural language descriptions of code changes (namely bug fixes described in Issue reports in repositories) into correct code fixes. To this end, we introduce Defects4J-NL2Fix, a dataset of 283 Java programs from the popular Defects4J dataset augmented with high-level descriptions of bug fixes, and empirically evaluate the performance of several state-of-the-art LLMs for the this task. Results show that these LLMS together are capable of generating plausible fixes for 64.6% of the bugs, and the best LLM-based technique can achieve up to 21.20% top-1 and 35.68% top-5 accuracy on this benchmark.

The increasing development of large language models (LLMs) in code generation has drawn significant attention among researchers. To enhance LLM-based code generation ability, current efforts are predominantly directed towards collecting high-quality datasets and leveraging diverse training technologies. However, there is a notable lack of comprehensive studies examining the limitations and boundaries of these existing methods. To bridge this gap, we conducted an extensive empirical study evaluating the performance of three leading closed-source LLMs and four popular open-source LLMs on three commonly used benchmarks. Our investigation, which evaluated the length, cyclomatic complexity and API number of the generated code, revealed that these LLMs face challenges in generating successful code for more complex problems, and tend to produce code that is shorter yet more complicated as compared to canonical solutions. Additionally, we developed a taxonomy of bugs for incorrect codes that includes three categories and 12 sub-categories, and analyze the root cause for common bug types. Furthermore, to better understand the performance of LLMs in real-world projects, we manually created a real-world benchmark comprising 140 code generation tasks. Our analysis highlights distinct differences in bug distributions between actual scenarios and existing benchmarks. Finally, we propose a novel training-free iterative method that introduces self-critique, enabling LLMs to critique and correct their generated code based on bug types and compiler feedback. Experimental results demonstrate that our approach can significantly mitigate bugs and increase the passing rate by 29.2% after two iterations, indicating substantial potential for LLMs to handle more complex problems.

Decompilation aims to restore compiled code to human-readable source code, but struggles with details like names and structure. Large language models (LLMs) show promise for programming tasks, motivating their application to decompilation. However, there does not exist any open-source LLM for decompilation. Moreover, existing decompilation evaluation systems mainly consider token-level accuracy and largely ignore code executability, which is the most important feature of any program. Therefore, we release the first open-access decompilation LLMs ranging from 1B to 33B pre-trained on 4 billion tokens of C source code and the corresponding assembly code. The open-source LLMs can serve as baselines for further development in the field. To ensure practical program evaluation, we introduce Decompile-Eval, the first dataset that considers re-compilability and re-executability for decompilation. The benchmark emphasizes the importance of evaluating the decompilation model from the perspective of program semantics. Experiments indicate that our LLM4Decompile has demonstrated the capability to accurately decompile 21% of the assembly code, which achieves a 50% improvement over GPT-4. Our code, dataset, and models are released at https://github.com/albertan017/LLM4Decompile

Fine-tuning large pre-trained models has become the de facto strategy for developing both task-specific and general-purpose machine learning systems, including developing models that are safe to deploy. Despite its clear importance, there has been minimal work that explains how fine-tuning alters the underlying capabilities learned by a model during pretraining: does fine-tuning yield entirely novel capabilities or does it just modulate existing ones? We address this question empirically in synthetic, controlled settings where we can use mechanistic interpretability tools (e.g., network pruning and probing) to understand how the model's underlying capabilities are changing. We perform an extensive analysis of the effects of fine-tuning in these settings, and show that: (i) fine-tuning rarely alters the underlying model capabilities; (ii) a minimal transformation, which we call a 'wrapper', is typically learned on top of the underlying model capabilities, creating the illusion that they have been modified; and (iii) further fine-tuning on a task where such hidden capabilities are relevant leads to sample-efficient 'revival' of the capability, i.e., the model begins reusing these capability after only a few gradient steps. This indicates that practitioners can unintentionally remove a model's safety wrapper merely by fine-tuning it on a, e.g., superficially unrelated, downstream task. We additionally perform analysis on language models trained on the TinyStories dataset to support our claims in a more realistic setup.

Pre-trained language models can be fine-tuned to solve diverse NLP tasks, including in few-shot settings. Thus fine-tuning allows the model to quickly pick up task-specific ``skills,'' but there has been limited study of where these newly-learnt skills reside inside the massive model. This paper introduces the term skill localization for this problem and proposes a solution. Given the downstream task and a model fine-tuned on that task, a simple optimization is used to identify a very small subset of parameters (sim0.01% of model parameters) responsible for (>95%) of the model's performance, in the sense that grafting the fine-tuned values for just this tiny subset onto the pre-trained model gives performance almost as well as the fine-tuned model. While reminiscent of recent works on parameter-efficient fine-tuning, the novel aspects here are that: (i) No further re-training is needed on the subset (unlike, say, with lottery tickets). (ii) Notable improvements are seen over vanilla fine-tuning with respect to calibration of predictions in-distribution (40-90% error reduction) as well as the quality of predictions out-of-distribution (OOD). In models trained on multiple tasks, a stronger notion of skill localization is observed, where the sparse regions corresponding to different tasks are almost disjoint, and their overlap (when it happens) is a proxy for task similarity. Experiments suggest that localization via grafting can assist certain forms of continual learning.

Counterexample-guided repair aims at creating neural networks with mathematical safety guarantees, facilitating the application of neural networks in safety-critical domains. However, whether counterexample-guided repair is guaranteed to terminate remains an open question. We approach this question by showing that counterexample-guided repair can be viewed as a robust optimisation algorithm. While termination guarantees for neural network repair itself remain beyond our reach, we prove termination for more restrained machine learning models and disprove termination in a general setting. We empirically study the practical implications of our theoretical results, demonstrating the suitability of common verifiers and falsifiers for repair despite a disadvantageous theoretical result. Additionally, we use our theoretical insights to devise a novel algorithm for repairing linear regression models based on quadratic programming, surpassing existing approaches.

Reproducing buggy code is the first and crucially important step in issue resolving, as it aids in identifying the underlying problems and validating that generated patches resolve the problem. While numerous approaches have been proposed for this task, they primarily address common, widespread errors and struggle to adapt to unique, evolving errors specific to individual code repositories. To fill this gap, we propose EvoCoder, a multi-agent continuous learning framework for issue code reproduction. EvoCoder adopts a reflection mechanism that allows the LLM to continuously learn from previously resolved problems and dynamically refine its strategies to new emerging challenges. To prevent experience bloating, EvoCoder introduces a novel hierarchical experience pool that enables the model to adaptively update common and repo-specific experiences. Our experimental results show a 20\% improvement in issue reproduction rates over existing SOTA methods. Furthermore, integrating our reproduction mechanism significantly boosts the overall accuracy of the existing issue-resolving pipeline.

Activation patching is a popular mechanistic interpretability technique, but has many subtleties regarding how it is applied and how one may interpret the results. We provide a summary of advice and best practices, based on our experience using this technique in practice. We include an overview of the different ways to apply activation patching and a discussion on how to interpret the results. We focus on what evidence patching experiments provide about circuits, and on the choice of metric and associated pitfalls.

This paper introduces Patched Round-Trip Correctness (Patched RTC), a novel evaluation technique for Large Language Models (LLMs) applied to diverse software development tasks, particularly focusing on "outer loop" activities such as bug fixing, code review, and documentation updates. Patched RTC extends the original Round-Trip Correctness method to work with any LLM and downstream task, offering a self-evaluating framework that measures consistency and robustness of model responses without human intervention. The study demonstrates a correlation between Patched RTC scores and task-specific accuracy metrics, presenting it as an alternative to the LLM-as-Judge paradigm for open-domain task evaluation. We implement Patched RTC in an open-source framework called patchwork, allowing for transparent evaluation during inference across various patchflows. Experiments comparing GPT-3.5 and GPT-4 models across different software development tasks reveal that Patched RTC effectively distinguishes model performance and task difficulty. The paper also explores the impact of consistency prompts on improving model accuracy, suggesting that Patched RTC can guide prompt refinement and model selection for complex software development workflows.

Software testing is a crucial phase in the software life cycle, helping identify potential risks and reduce maintenance costs. With the advancement of Large Language Models (LLMs), researchers have proposed an increasing number of LLM-based software testing techniques, particularly in the area of test case generation. Despite the growing interest, limited efforts have been made to thoroughly evaluate the actual capabilities of LLMs in this task. In this paper, we introduce TestBench, a benchmark for class-level LLM-based test case generation. We construct a dataset of 108 Java programs from 9 real-world, large-scale projects on GitHub, each representing a different thematic domain. We then design three distinct types of prompts based on context descriptions, including self-contained context, full context, and simple context. Besides, we propose a fine-grained evaluation framework that considers five aspects of test cases: syntactic correctness, compilation correctness, test correctness, code coverage rate, and defect detection rate. Furthermore, we propose a heuristic algorithm to repair erroneous test cases generated by LLMs. We evaluate CodeLlama-13b, GPT-3.5, and GPT-4 on the TestBench, and our experimental results indicate that larger models demonstrate a greater ability to effectively utilize contextual information, thus generating higher-quality test cases. Smaller models may struggle with the noise introduced by the extensive information contained within the full context. However, when using the simplified version, namely the simple context, which is derived from the full context via abstract syntax tree analysis, the performance of these models improves significantly. Our analysis highlights the current progress and pinpoints future directions to further enhance the effectiveness of models by handling contextual information for test case generation.

Despite the huge success of Large Language Models (LLMs) in coding assistants like GitHub Copilot, these models struggle to understand the context present in the repository (e.g., imports, parent classes, files with similar names, etc.), thereby producing inaccurate code completions. This effect is more pronounced when using these assistants for repositories that the model has not seen during training, such as proprietary software or work-in-progress code projects. Recent work has shown the promise of using context from the repository during inference. In this work, we extend this idea and propose RepoFusion, a framework to train models to incorporate relevant repository context. Experiments on single-line code completion show that our models trained with repository context significantly outperform much larger code models as CodeGen-16B-multi (sim73times larger) and closely match the performance of the sim 70times larger StarCoderBase model that was trained with the Fill-in-the-Middle objective. We find these results to be a novel and compelling demonstration of the gains that training with repository context can bring. We carry out extensive ablation studies to investigate the impact of design choices such as context type, number of contexts, context length, and initialization within our framework. Lastly, we release Stack-Repo, a dataset of 200 Java repositories with permissive licenses and near-deduplicated files that are augmented with three types of repository contexts. Additionally, we are making available the code and trained checkpoints for our work. Our released resources can be found at https://huggingface.co/RepoFusion.

Software developers spend a significant portion of time fixing bugs in their projects. To streamline this process, bug localization approaches have been proposed to identify the source code files that are likely responsible for a particular bug. Prior work proposed several similarity-based machine-learning techniques for bug localization. Despite significant advances in these techniques, they do not directly optimize the evaluation measures. We argue that directly optimizing evaluation measures can positively contribute to the performance of bug localization approaches. Therefore, In this paper, we utilize Reinforcement Learning (RL) techniques to directly optimize the ranking metrics. We propose RLocator, a Reinforcement Learning-based bug localization approach. We formulate RLocator using a Markov Decision Process (MDP) to optimize the evaluation measures directly. We present the technique and experimentally evaluate it based on a benchmark dataset of 8,316 bug reports from six highly popular Apache projects. The results of our evaluation reveal that RLocator achieves a Mean Reciprocal Rank (MRR) of 0.62, a Mean Average Precision (MAP) of 0.59, and a Top 1 score of 0.46. We compare RLocator with two state-of-the-art bug localization tools, FLIM and BugLocator. Our evaluation reveals that RLocator outperforms both approaches by a substantial margin, with improvements of 38.3% in MAP, 36.73% in MRR, and 23.68% in the Top K metric. These findings highlight that directly optimizing evaluation measures considerably contributes to performance improvement of the bug localization problem.

The utilization of programming language (PL) models, pre-trained on large-scale code corpora, as a means of automating software engineering processes has demonstrated considerable potential in streamlining various code generation tasks such as code completion, code translation, and program synthesis. However, current approaches mainly rely on supervised fine-tuning objectives borrowed from text generation, neglecting unique sequence-level characteristics of code, including but not limited to compilability as well as syntactic and functional correctness. To address this limitation, we propose PPOCoder, a new framework for code generation that synergistically combines pre-trained PL models with Proximal Policy Optimization (PPO) which is a widely used deep reinforcement learning technique. By utilizing non-differentiable feedback from code execution and structure alignment, PPOCoder seamlessly integrates external code-specific knowledge into the model optimization process. It's important to note that PPOCoder is a task-agnostic and model-agnostic framework that can be used across different code generation tasks and PLs. Extensive experiments on three code generation tasks demonstrate the effectiveness of our proposed approach compared to SOTA methods, achieving significant improvements in compilation success rates and functional correctness across different PLs.

Recent Language Models (LMs) achieve breakthrough performance in code generation when trained on human-authored problems, even solving some competitive-programming problems. Self-play has proven useful in games such as Go, and thus it is natural to ask whether LMs can generate their own instructive programming problems to improve their performance. We show that it is possible for an LM to synthesize programming problems and solutions, which are filtered for correctness by a Python interpreter. The LM's performance is then seen to improve when it is fine-tuned on its own synthetic problems and verified solutions; thus the model 'improves itself' using the Python interpreter. Problems are specified formally as programming puzzles [Schuster et al., 2021], a code-based problem format where solutions can easily be verified for correctness by execution. In experiments on publicly-available LMs, test accuracy more than doubles. This work demonstrates the potential for code LMs, with an interpreter, to generate instructive problems and improve their own performance.

Instruction Fine-Tuning (IFT) is a powerful paradigm that strengthens the zero-shot capabilities of Large Language Models (LLMs), but in doing so induces new evaluation metric requirements. We show LLM-based metrics to be well adapted to these requirements, and leverage them to conduct an investigation of task-specialization strategies, quantifying the trade-offs that emerge in practical industrial settings. Our findings offer practitioners actionable insights for real-world IFT model deployment.

Open-Source Software (OSS) vulnerabilities bring great challenges to the software security and pose potential risks to our society. Enormous efforts have been devoted into automated vulnerability detection, among which deep learning (DL)-based approaches have proven to be the most effective. However, the current labeled data present the following limitations: (1) Tangled Patches: Developers may submit code changes unrelated to vulnerability fixes within patches, leading to tangled patches. (2) Lacking Inter-procedural Vulnerabilities: The existing vulnerability datasets typically contain function-level and file-level vulnerabilities, ignoring the relations between functions, thus rendering the approaches unable to detect the inter-procedural vulnerabilities. (3) Outdated Patches: The existing datasets usually contain outdated patches, which may bias the model during training. To address the above limitations, in this paper, we propose an automated data collection framework and construct the first repository-level high-quality vulnerability dataset named ReposVul. The proposed framework mainly contains three modules: (1) A vulnerability untangling module, aiming at distinguishing vulnerability-fixing related code changes from tangled patches, in which the Large Language Models (LLMs) and static analysis tools are jointly employed. (2) A multi-granularity dependency extraction module, aiming at capturing the inter-procedural call relationships of vulnerabilities, in which we construct multiple-granularity information for each vulnerability patch, including repository-level, file-level, function-level, and line-level. (3) A trace-based filtering module, aiming at filtering the outdated patches, which leverages the file path trace-based filter and commit time trace-based filter to construct an up-to-date dataset.

The strong performance of large language models (LLMs) on natural language processing tasks raises extensive discussion on their application to code generation. Recent work suggests multiple sampling approaches to improve initial code generation accuracy or program repair approaches to refine the code. However, these methods suffer from LLMs' inefficiencies and limited reasoning capacity. In this work, we propose an LLM programming workflow (LPW) designed to improve both initial code generation and subsequent refinements within a structured two-phase workflow. Specifically, in the solution generation phase, the LLM first outlines a solution plan that decomposes the problem into manageable sub-problems and then verifies the generated solution plan through visible test cases. Subsequently, in the code implementation phase, the LLM initially drafts a code according to the solution plan and its verification. If the generated code fails the visible tests, the plan verification serves as the intended natural language solution to inform the refinement process for correcting bugs. We further introduce SLPW, a sampling variant of LPW, which initially generates multiple solution plans and plan verifications, produces a program for each plan and its verification, and refines each program as necessary until one successfully passes the visible tests. Compared to the state-of-the-art methods across various existing LLMs, our experimental results show that LPW significantly improves the Pass@1 accuracy by up to 16.4% on well-established text-to-code generation benchmarks, especially with a notable improvement of around 10% on challenging benchmarks. Additionally, SLPW demonstrates up to a 5.6% improvement over LPW and sets new state-of-the-art Pass@1 accuracy on various benchmarks, e.g., 98.2% on HumanEval, 84.8% on MBPP, 64.0% on APPS, and 35.3% on CodeContest, using GPT-4o as the backbone.