arXiv subjects

Vasco Manquinho

Publications and source records attributed to Vasco Manquinho.

At least 19 recordsLinked to original sources

arXiv2026

What Bugs Do Prolog Students Write? An Empirical Taxonomy and Data-Driven Mutation Framework

Automated feedback tools for logic programming education depend on realistic bug datasets that reflect the mistakes students actually make. However, existing mutation testing frameworks for Prolog treat all mutations as equally likely, producing synthetic faults that diverge from classroom reality. We present an empirical study of 7,201 Prolog submissions from 265 undergraduate students, from which we derive a fine-grained taxonomy of student bugs through manual classification of 200 bug-fixing submissions. Guided by this taxonomy, we develop LogMorph, a data-driven mutation tool whose 17 operators are weighted according to the observed error distribution. LogMorph enumerates valid mutation sites on the abstract syntax tree, samples operators proportionally, injects faults, delegating to an SMT-based synthesizer when new code fragments are needed, and validates each mutant against a reference test suite. An evaluation of 16,000 generated mutants shows that the synthetic error distribution closely matches the student distribution, with most bug categories agreeing to within two percentage points. We identify cut-related mutations and synthesizer-generated code as the main sources of residual divergence, and outline how combining the SMT back-end with a language model fine-tuned on student code can further improve realism.

cs.LO↗

arXiv2026

Can Automated Feedback Turn Students into Happy Prologians?

Providing personalized feedback is essential for effective learning, but delivering it promptly can be challenging in large-scale courses. In this work, we present ProHelp, an automated assessment platform for Prolog built on top of the GitSeed framework, and we evaluate it through a survey of 144 students from a 365-student undergraduate logic programming course. We assessed the perceived usefulness of seven types of automated feedback, including automatic testing, predicate scoring, syntax error highlighting, open choice point warnings, score rankings, solution type validation, and unknown predicate name suggestions. Our results show that 74% of students agreed the feedback helped increase their grade, and the system achieved a System Usability Scale score of 78.5 (grade B+). Among the feedback types, automatic testing was ranked as the most useful, followed by open choice point warnings and predicate scoring, with statistically significant differences. We found no significant effect of students' interest level, engagement with optional exercises, or use of large language models on their perception of feedback usefulness. We also explore student preferences for future feedback features, finding a significant preference for showing the differences between generated and expected test outputs.

cs.SE↗

arXiv2026

ProDebug: An Automated Debugging System for Prolog

Prolog is a well-known declarative programming language commonly used in introductory courses on logic and reasoning. However, many students find Prolog challenging because it lacks the familiar debugging mechanisms found in imperative languages. In large classes, this difficulty is exacerbated by the challenge of providing timely and personalized feedback to students. In this work, we introduce ProDebug, the first tool to combine Large Language Models (LLMs) with spectrum-based and mutation-based techniques for automated debugging of Prolog assignments. ProDebug automatically identifies faults and proposes bug repairs for student Git submissions. Faults are detected using three approaches--spectrum-based, mutation-based, and LLM reasoning--while repairs are generated using mutation-based techniques and LLMs. Our evaluation on 1499 buggy student submissions from a bachelor's level programming class demonstrates the potential of automated, LLM-augmented feedback systems to scale support for declarative programming education.

cs.PL↗

arXiv2026

SPELL: Synthesis of Programmatic Edits using LLMs

Library migration is a common but error-prone task in software development. Developers may need to replace one library with another due to reasons like changing requirements or licensing changes. Migration typically entails updating and rewriting source code manually. While automated migration tools exist, most rely on mining examples from real-world projects that have already undergone similar migrations. However, these data are scarce, and collecting them for arbitrary pairs of libraries is difficult. Moreover, these migration tools often miss out on leveraging modern code transformation infrastructure. In this paper, we present a new approach to automated API migration that sidesteps the limitations described above. Instead of relying on existing migration data or using LLMs directly for transformation, we use LLMs to extract migration examples. Next, we use an Agent to generalize those examples to reusable transformation scripts in PolyglotPiranha, a modern code transformation tool. Our method distills latent migration knowledge from LLMs into structured, testable, and repeatable migration logic, without requiring preexisting corpora or manual engineering effort. Experimental results across Python libraries show that our system can generate diverse migration examples and synthesize transformation scripts that generalize to real-world codebases.

cs.SE↗

arXiv2025

Model-Based Diagnosis with Multiple Observations: A Unified Approach for C Software and Boolean Circuits

Debugging is one of the most time-consuming and expensive tasks in software development and circuit design. Several formula-based fault localisation (FBFL) methods have been proposed, but they fail to guarantee a set of diagnoses across all failing tests or may produce redundant diagnoses that are not subset-minimal, particularly for programs/circuits with multiple faults. This paper introduces CFaults, a novel fault localisation tool for C software and Boolean circuits with multiple faults. CFaults leverages Model-Based Diagnosis (MBD) with multiple observations and aggregates all failing test cases into a unified Maximum Satisfiability (MaxSAT) formula. Consequently, our method guarantees consistency across observations and simplifies the fault localisation procedure. Experimental results on three benchmark sets, two of C programs, TCAS and C-Pack-IPAs, and one of Boolean circuits, ISCAS85, show that CFaults is faster at localising faults in C software than other FBFL approaches such as BugAssist, SNIPER, and HSD. On the ISCAS85 benchmark, CFaults is generally slower than HSD; however, it localises faults in only 6% fewer circuits, demonstrating that it remains competitive in this domain. Furthermore, CFaults produces only subset-minimal diagnoses of faulty statements, whereas the other approaches tend to enumerate redundant diagnoses (e.g., BugAssist and SNIPER).

cs.SE↗

arXiv2025

CFaults: Model-Based Diagnosis for Fault Localization in C Programs with Multiple Test Cases

Debugging is one of the most time-consuming and expensive tasks in software development. Several formula-based fault localization (FBFL) methods have been proposed, but they fail to guarantee a set of diagnoses across all failing tests or may produce redundant diagnoses that are not subset-minimal, particularly for programs with multiple faults. This paper introduces a novel fault localization approach for C programs with multiple faults. CFaults leverages Model-Based Diagnosis (MBD) with multiple observations and aggregates all failing test cases into a unified MaxSAT formula. Consequently, our method guarantees consistency across observations and simplifies the fault localization procedure. Experimental results on two benchmark sets of C programs, TCAS and C-Pack-IPAs, show that CFaults is faster than other FBFL approaches like BugAssist and SNIPER. Moreover, CFaults only generates subset-minimal diagnoses of faulty statements, whereas the other approaches tend to enumerate redundant diagnoses.

cs.SE↗

arXiv2025

Computation of Immediate Neighbours of Monotone Boolean Functions

Boolean networks constitute relevant mathematical models to study the behaviours of genetic and signalling networks. These networks define regulatory influences between molecular nodes, each being associated to a Boolean variable and a regulatory (local) function specifying its dynamical behaviour depending on its regulators. However, existing data is mostly insufficient to adequately parametrise a model, that is to uniquely define a regulatory function for each node. With the intend to support model parametrisation, this paper presents results on the set of Boolean functions compatible with a given regulatory structure, i.e. the partially ordered set of monotone non-degenerate Boolean functions. More precisely, we present original rules to obtain the direct neighbours of any function of this set. Besides a theoretical interest, presented results will enable the development of more efficient methods for Boolean network synthesis and revision, benefiting from the progressive exploration of the vicinity of regulatory functions.

cs.DM↗

arXiv2025

Automatic Design-Time Detection of Anomalies in Migrating Monolithic Applications to Microservices

The advent of microservices has led multiple companies to migrate their monolithic systems to this new architecture. When decomposing a monolith, a functionality previously implemented as a transaction may need to be implemented as a set of independent sub-transactions, possibly executed by multiple microservices. The concurrent execution of decomposed functionalities may interleave in ways that were impossible in the monolith, paving the way for anomalies to emerge. The anomalies that may occur critically depend on how the monolith is decomposed. The ability to assess, at design time, the anomalies that different decompositions may generate is key to guide the programmers in finding the most appropriate decomposition that matches their goals. This paper introduces MAD, the first framework for automatically detecting anomalies that are introduced by a given decomposition of a monolith into microservices. MAD operates by encoding non-serializable executions of the original functionalities as an SMT formula and then using a solver to find satisfiable assignments that capture the anomalous interleavings made possible by that specific decomposition. We have applied MAD to different benchmarks and show that it can identify precisely the causes of potential anomalous behavior for different decompositions.

cs.SE↗

arXiv2025

InvAASTCluster: On Applying Invariant-Based Program Clustering to Introductory Programming Assignments

Due to the vast number of students enrolled in programming courses, there has been an increasing number of automated program repair techniques focused on introductory programming assignments (IPAs). Typically, such techniques use program clustering to take advantage of previous correct student implementations to repair a new incorrect submission. These repair techniques use clustering methods since analyzing all available correct submissions to repair a program is not feasible. However, conventional clustering methods rely on program representations based on features such as abstract syntax trees (ASTs), syntax, control flow, and data flow. This paper proposes InvAASTCluster, a novel approach for program clustering that uses dynamically generated program invariants to cluster semantically equivalent IPAs. InvAASTCluster's program representation uses a combination of the program's semantics, through its invariants, and its structure through its anonymized abstract syntax tree (AASTs). Invariants denote conditions that must remain true during program execution, while AASTs are ASTs devoid of variable and function names, retaining only their types. Our experiments show that the proposed program representation outperforms syntax-based representations when clustering a set of correct IPAs. Furthermore, we integrate InvAASTCluster into a state-of-the-art clustering-based program repair tool. Our results show that InvAASTCluster advances the current state-of-the-art when used by clustering-based repair tools by repairing around 13% more students' programs, in a shorter amount of time.

cs.SE↗

arXiv2024

Counterexample Guided Program Repair Using Zero-Shot Learning and MaxSAT-based Fault Localization

Automated Program Repair (APR) for introductory programming assignments (IPAs) is motivated by the large number of student enrollments in programming courses each year. Since providing feedback on IPAs requires substantial time and effort from faculty, personalized feedback often involves suggesting fixes to students' programs. Formal Methods (FM)-based semantic repair approaches, check a program's execution against a test suite or reference solution, are effective but limited. These tools excel at identifying buggy parts but can only fix programs if the correct implementation and the faulty one share the same control flow graph. Conversely, Large Language Models (LLMs) are used for APR but often make extensive instead of minimal rewrites. This leads to more invasive fixes, making it harder for students to learn from their mistakes. In summary, LLMs excel at completing strings, while FM-based fault localization excel at identifying buggy parts of a program. In this paper, we propose a novel approach that combines the strengths of both FM-based fault localization and LLMs, via zero-shot learning, to enhance APR for IPAs. Our method uses MaxSAT-based fault localization to identify buggy parts of a program, then presents the LLM with a program sketch devoid of these buggy statements. This hybrid approach follows a CEGIS loop to iteratively refine the program. We ask the LLM to synthesize the missing parts, which are then checked against a test suite. If the suggested program is incorrect, a counterexample from the test suite is fed back to the LLM. Our experiments show that our counterexample guided approach, using MaxSAT-based bug-free program sketches, significantly improves the repair capabilities of all six evaluated LLMs. This method allows LLMs to repair more programs with smaller fixes, outperforming other configurations and state-of-the-art symbolic program repair tools.

cs.SE↗

arXiv2024

Combining Logic with Large Language Models for Automatic Debugging and Repair of ASP Programs

Logic programs are a powerful approach for solving NP-Hard problems. However, due to their declarative nature, debugging logic programs poses significant challenges. Unlike procedural paradigms, which allow for step-by-step inspection of program state, logic programs require reasoning about logical statements for fault localization. This complexity is amplified in learning environments due to students' inexperience. We introduce FormHe, a novel tool that combines logic-based techniques and Large Language Models to identify and correct issues in Answer Set Programming submissions. FormHe consists of two components: a fault localization module and a program repair module. First, the fault localizer identifies a set of faulty program statements requiring modification. Subsequently, FormHe employs program mutation techniques and Large Language Models to repair the flawed ASP program. These repairs can then serve as guidance for students to correct their programs. Our experiments with real buggy programs submitted by students show that FormHe accurately detects faults in 94% of cases and successfully repairs 58% of incorrect submissions.

cs.SE↗

arXiv2024

GitSEED: A Git-backed Automated Assessment Tool for Software Engineering and Programming Education

Due to the substantial number of enrollments in programming courses, a key challenge is delivering personalized feedback to students. The nature of this feedback varies significantly, contingent on the subject and the chosen evaluation method. However, tailoring current Automated Assessment Tools (AATs) to integrate other program analysis tools is not straightforward. Moreover, AATs usually support only specific programming languages, providing feedback exclusively through dedicated websites based on test suites. This paper introduces GitSEED, a language-agnostic automated assessment tool designed for Programming Education and Software Engineering (SE) and backed by GitLab. The students interact with GitSEED through GitLab. Using GitSEED, students in Computer Science (CS) and SE can master the fundamentals of git while receiving personalized feedback on their programming assignments and projects. Furthermore, faculty members can easily tailor GitSEED's pipeline by integrating various code evaluation tools (e.g., memory leak detection, fault localization, program repair, etc.) to offer personalized feedback that aligns with the needs of each CS/SE course. Our experiments assess GitSEED's efficacy via comprehensive user evaluation, examining the impact of feedback mechanisms and features on student learning outcomes. Findings reveal positive correlations between GitSEED usage and student engagement.

cs.SE↗

arXiv2024

MELT: Mining Effective Lightweight Transformations from Pull Requests

Software developers often struggle to update APIs, leading to manual, time-consuming, and error-prone processes. We introduce MELT, a new approach that generates lightweight API migration rules directly from pull requests in popular library repositories. Our key insight is that pull requests merged into open-source libraries are a rich source of information sufficient to mine API migration rules. By leveraging code examples mined from the library source and automatically generated code examples based on the pull requests, we infer transformation rules in \comby, a language for structural code search and replace. Since inferred rules from single code examples may be too specific, we propose a generalization procedure to make the rules more applicable to client projects. MELT rules are syntax-driven, interpretable, and easily adaptable. Moreover, unlike previous work, our approach enables rule inference to seamlessly integrate into the library workflow, removing the need to wait for client code migrations. We evaluated MELT on pull requests from four popular libraries, successfully mining 461 migration rules from code examples in pull requests and 114 rules from auto-generated code examples. Our generalization procedure increases the number of matches for mined rules by 9x. We applied these rules to client projects and ran their tests, which led to an overall decrease in the number of warnings and fixing some test cases demonstrating MELT's effectiveness in real-world scenarios.

cs.SE↗

arXiv2024

CUBES: A Parallel Synthesizer for SQL Using Examples

In recent years, more people have seen their work depend on data manipulation tasks. However, many of these users do not have the background in programming required to write complex programs, particularly SQL queries. One way of helping these users is automatically synthesizing the SQL query given a small set of examples. Several program synthesizers for SQL have been recently proposed, but they do not leverage multicore architectures. This paper proposes CUBES, a parallel program synthesizer for the domain of SQL queries using input-output examples. Since input-output examples are an under-specification of the desired SQL query, sometimes, the synthesized query does not match the user's intent. CUBES incorporates a new disambiguation procedure based on fuzzing techniques that interacts with the user and increases the confidence that the returned query matches the user intent. We perform an extensive evaluation on around 4000 SQL queries from different domains. Experimental results show that our sequential version can solve more instances than other state-of-the-art SQL synthesizers. Moreover, the parallel approach can scale up to 16 processes with super-linear speedups for many hard instances. Our disambiguation approach is critical to achieving an accuracy of around 60%, significantly larger than other SQL synthesizers.

cs.PL↗

arXiv2023

On Repairing Natural Language to SQL Queries

Data analysts use SQL queries to access and manipulate data on their databases. However, these queries are often challenging to write, and small mistakes can lead to unexpected data output. Recent work has explored several ways to automatically synthesize queries based on a user-provided specification. One promising technique called text-to-SQL consists of the user providing a natural language description of the intended behavior and the database's schema. Even though text-to-SQL tools are becoming more accurate, there are still many instances where they fail to produce the correct query. In this paper, we analyze when text-to-SQL tools fail to return the correct query and show that it is often the case that the returned query is close to a correct query. We propose to repair these failing queries using a mutation-based approach that is agnostic to the text-to-SQL tool being used. We evaluate our approach on two recent text-to-SQL tools, RAT-SQL and SmBoP, and show that our approach can repair a significant number of failing queries.

cs.DB↗

arXiv2023

Graph Neural Networks For Mapping Variables Between Programs -- Extended Version

Automated program analysis is a pivotal research domain in many areas of Computer Science -- Formal Methods and Artificial Intelligence, in particular. Due to the undecidability of the problem of program equivalence, comparing two programs is highly challenging. Typically, in order to compare two programs, a relation between both programs' sets of variables is required. Thus, mapping variables between two programs is useful for a panoply of tasks such as program equivalence, program analysis, program repair, and clone detection. In this work, we propose using graph neural networks (GNNs) to map the set of variables between two programs based on both programs' abstract syntax trees (ASTs). To demonstrate the strength of variable mappings, we present three use-cases of these mappings on the task of program repair to fix well-studied and recurrent bugs among novice programmers in introductory programming assignments (IPAs). Experimental results on a dataset of 4166 pairs of incorrect/correct programs show that our approach correctly maps 83% of the evaluation dataset. Moreover, our experiments show that the current state-of-the-art on program repair, greatly dependent on the programs' structure, can only repair about 72% of the incorrect programs. In contrast, our approach, which is solely based on variable mappings, can repair around 88.5%.

cs.SE↗

arXiv2023

UpMax: User partitioning for MaxSAT

It has been shown that Maximum Satisfiability (MaxSAT) problem instances can be effectively solved by partitioning the set of soft clauses into several disjoint sets. The partitioning methods can be based on clause weights (e.g., stratification) or based on graph representations of the formula. Afterwards, a merge procedure is applied to guarantee that an optimal solution is found. This paper proposes a new framework called UpMax that decouples the partitioning procedure from the MaxSAT solving algorithms. As a result, new partitioning procedures can be defined independently of the MaxSAT algorithm to be used. Moreover, this decoupling also allows users that build new MaxSAT formulas to propose partition schemes based on knowledge of the problem to be solved. We illustrate this approach using several problems and show that partitioning has a large impact on the performance of unsatisfiability-based MaxSAT algorithms.

cs.AI↗

arXiv2022

C-Pack of IPAs: A C90 Program Benchmark of Introductory Programming Assignments

Due to the vast number of students enrolled in Massive Open Online Courses (MOOCs), there has been an increasing number of automated program repair techniques focused on introductory programming assignments (IPAs). Such techniques take advantage of previous correct student implementations in order to provide automated, comprehensive, and personalized feedback to students. This paper presents C-Pack-IPAs, a publicly available benchmark of students' programs submitted for 25 different IPAs. C-Pack-IPAs contains semantically correct, semantically incorrect, and syntactically incorrect programs plus a test suite for each IPA. Hence, C-Pack-IPAs can be used to help evaluate the development of novel semantic, as well as syntactic, automated program repair frameworks, focused on providing feedback to novice programmers.

cs.SE↗