Daily Papers

Knowledge Graph based Retrieval-Augmented Generation (KG-RAG) is a technique that enhances Large Language Model (LLM) inference in tasks like Question Answering (QA) by retrieving relevant information from knowledge graphs (KGs). However, real-world KGs are often incomplete, meaning that essential information for answering questions may be missing. Existing benchmarks do not adequately capture the impact of KG incompleteness on KG-RAG performance. In this paper, we systematically evaluate KG-RAG methods under incomplete KGs by removing triples using different methods and analyzing the resulting effects. We demonstrate that KG-RAG methods are sensitive to KG incompleteness, highlighting the need for more robust approaches in realistic settings.

Despite its outstanding performance in various graph tasks, vanilla Message Passing Neural Network (MPNN) usually fails in link prediction tasks, as it only uses representations of two individual target nodes and ignores the pairwise relation between them. To capture the pairwise relations, some models add manual features to the input graph and use the output of MPNN to produce pairwise representations. In contrast, others directly use manual features as pairwise representations. Though this simplification avoids applying a GNN to each link individually and thus improves scalability, these models still have much room for performance improvement due to the hand-crafted and unlearnable pairwise features. To upgrade performance while maintaining scalability, we propose Neural Common Neighbor (NCN), which uses learnable pairwise representations. To further boost NCN, we study the unobserved link problem. The incompleteness of the graph is ubiquitous and leads to distribution shifts between the training and test set, loss of common neighbor information, and performance degradation of models. Therefore, we propose two intervention methods: common neighbor completion and target link removal. Combining the two methods with NCN, we propose Neural Common Neighbor with Completion (NCNC). NCN and NCNC outperform recent strong baselines by large margins. NCNC achieves state-of-the-art performance in link prediction tasks. Our code is available at https://github.com/GraphPKU/NeuralCommonNeighbor.

The wide spread of fake news is increasingly threatening both individuals and society. Great efforts have been made for automatic fake news detection on a single domain (e.g., politics). However, correlations exist commonly across multiple news domains, and thus it is promising to simultaneously detect fake news of multiple domains. Based on our analysis, we pose two challenges in multi-domain fake news detection: 1) domain shift, caused by the discrepancy among domains in terms of words, emotions, styles, etc. 2) domain labeling incompleteness, stemming from the real-world categorization that only outputs one single domain label, regardless of topic diversity of a news piece. In this paper, we propose a Memory-guided Multi-view Multi-domain Fake News Detection Framework (M^3FEND) to address these two challenges. We model news pieces from a multi-view perspective, including semantics, emotion, and style. Specifically, we propose a Domain Memory Bank to enrich domain information which could discover potential domain labels based on seen news pieces and model domain characteristics. Then, with enriched domain information as input, a Domain Adapter could adaptively aggregate discriminative information from multiple views for news in various domains. Extensive offline experiments on English and Chinese datasets demonstrate the effectiveness of M^3FEND, and online tests verify its superiority in practice. Our code is available at https://github.com/ICTMCG/M3FEND.

In this paper, we propose a novel network, SVDFormer, to tackle two specific challenges in point cloud completion: understanding faithful global shapes from incomplete point clouds and generating high-accuracy local structures. Current methods either perceive shape patterns using only 3D coordinates or import extra images with well-calibrated intrinsic parameters to guide the geometry estimation of the missing parts. However, these approaches do not always fully leverage the cross-modal self-structures available for accurate and high-quality point cloud completion. To this end, we first design a Self-view Fusion Network that leverages multiple-view depth image information to observe incomplete self-shape and generate a compact global shape. To reveal highly detailed structures, we then introduce a refinement module, called Self-structure Dual-generator, in which we incorporate learned shape priors and geometric self-similarities for producing new points. By perceiving the incompleteness of each point, the dual-path design disentangles refinement strategies conditioned on the structural type of each point. SVDFormer absorbs the wisdom of self-structures, avoiding any additional paired information such as color images with precisely calibrated camera intrinsic parameters. Comprehensive experiments indicate that our method achieves state-of-the-art performance on widely-used benchmarks. Code will be available at https://github.com/czvvd/SVDFormer.

Natural language serves as the primary mode of communication when an intelligent agent with a physical presence engages with human beings. While a plethora of research focuses on natural language understanding (NLU), encompassing endeavors such as sentiment analysis, intent prediction, question answering, and summarization, the scope of NLU directed at situations necessitating tangible actions by an embodied agent remains limited. The inherent ambiguity and incompleteness inherent in natural language present challenges for intelligent agents striving to decipher human intention. To tackle this predicament head-on, we introduce a novel system known as task and argument grounding for Embodied agents (tagE). At its core, our system employs an inventive neural network model designed to extract a series of tasks from complex task instructions expressed in natural language. Our proposed model adopts an encoder-decoder framework enriched with nested decoding to effectively extract tasks and their corresponding arguments from these intricate instructions. These extracted tasks are then mapped (or grounded) to the robot's established collection of skills, while the arguments find grounding in objects present within the environment. To facilitate the training and evaluation of our system, we have curated a dataset featuring complex instructions. The results of our experiments underscore the prowess of our approach, as it outperforms robust baseline models.

Formulating and answering logical queries is a standard communication interface for knowledge graphs (KGs). Alleviating the notorious incompleteness of real-world KGs, neural methods achieved impressive results in link prediction and complex query answering tasks by learning representations of entities, relations, and queries. Still, most existing query answering methods rely on transductive entity embeddings and cannot generalize to KGs containing new entities without retraining the entity embeddings. In this work, we study the inductive query answering task where inference is performed on a graph containing new entities with queries over both seen and unseen entities. To this end, we devise two mechanisms leveraging inductive node and relational structure representations powered by graph neural networks (GNNs). Experimentally, we show that inductive models are able to perform logical reasoning at inference time over unseen nodes generalizing to graphs up to 500% larger than training ones. Exploring the efficiency--effectiveness trade-off, we find the inductive relational structure representation method generally achieves higher performance, while the inductive node representation method is able to answer complex queries in the inference-only regime without any training on queries and scales to graphs of millions of nodes. Code is available at https://github.com/DeepGraphLearning/InductiveQE.

Recent advancements in multimodal large language models have enhanced document understanding by integrating textual and visual information. However, existing models exhibit incompleteness within their paradigm in real-world scenarios, particularly under visual degradation. In such conditions, the current response paradigm often fails to adequately perceive visual degradation and ambiguity, leading to overreliance on linguistic priors or misaligned visual-textual reasoning. This difficulty in recognizing uncertainty frequently results in the generation of hallucinatory content, especially when a precise answer is not feasible. To better demonstrate and analyze this phenomenon and problem, we propose KIE-HVQA, the first benchmark dedicated to evaluating OCR hallucination in degraded document understanding. This dataset includes test samples spanning identity cards and invoices, with simulated real-world degradations for OCR reliability. This setup allows for evaluating models' capacity, under degraded input, to distinguish reliable visual information and answer accordingly, thereby highlighting the challenge of avoiding hallucination on uncertain data. To achieve vision-faithful reasoning and thereby avoid the aforementioned issues, we further introduce a GRPO-based framework featuring a novel reward mechanism. By incorporating a self-awareness of visual uncertainty and an analysis method that initiates refusal to answer to increase task difficulty within our supervised fine-tuning and reinforcement learning framework, we successfully mitigated hallucinations in ambiguous regions. Experiments on Qwen2.5-VL demonstrate that our 7B-parameter model achieves a 22\% absolute improvement in hallucination-free accuracy over GPT-4o on KIE-HVQA and there is no significant performance drop in standard tasks, highlighting both effectiveness and robustness.

Using data from the Galaxy and Mass Assembly (GAMA) survey, we investigate how galaxy properties correlate with the local environment, focusing on the two southern regions of the survey (G02 and G23) that have not previously been examined in this context. We employ two-point and marked correlation functions to quantify the environmental dependence of galaxy color, stellar mass, luminosity across the u, g, r, J, and K bands, as well as star formation rate (SFR) and specific star formation rate (sSFR). We also assess the impact of redshift incompleteness and cosmic variance on these clustering measurements. Our results show that u-r and g-r colors are most strongly correlated with local overdensity, followed by stellar mass. The sSFR exhibits a clear inverse relationship with density of the environment, consistent with the trend observed for u-band luminosity, which traces young stellar populations. In contrast, galaxies brighter in the g, J, and K bands preferentially inhabit denser regions. By comparing our measurements from the southern regions with those from the equatorial regions of GAMA, we find that cosmic variance does not significantly influence our conclusions. However, redshift incompleteness affects the clustering measurements, as revealed through comparisons of subsets within the G02 region. The measured correlations provide key constraints for models of galaxy assembly across mass and environment, while the environmental trends in color and near-infrared luminosity offer a means to trace stellar mass growth and quenching with redshift.

Graph-based Retrieval-Augmented Generation (GraphRAG) mitigates hallucinations in Large Language Models (LLMs) by grounding them in structured knowledge. However, current GraphRAG methods are constrained by a prevailing build-then-reason paradigm, which relies on a static, pre-constructed Knowledge Graph (KG). This paradigm faces two critical challenges. First, the KG's inherent incompleteness often breaks reasoning paths. Second, the graph's low signal-to-noise ratio introduces distractor facts, presenting query-relevant but misleading knowledge that disrupts the reasoning process. To address these challenges, we argue for a reason-and-construct paradigm and propose Relink, a framework that dynamically builds a query-specific evidence graph. To tackle incompleteness, Relink instantiates required facts from a latent relation pool derived from the original text corpus, repairing broken paths on the fly. To handle misleading or distractor facts, Relink employs a unified, query-aware evaluation strategy that jointly considers candidates from both the KG and latent relations, selecting those most useful for answering the query rather than relying on their pre-existence. This empowers Relink to actively discard distractor facts and construct the most faithful and precise evidence path for each query. Extensive experiments on five Open-Domain Question Answering benchmarks show that Relink achieves significant average improvements of 5.4\% in EM and 5.2\% in F1 over leading GraphRAG baselines, demonstrating the superiority of our proposed framework.

Humans can naturally identify and mentally complete occluded objects in cluttered environments. However, imparting similar cognitive ability to robotics remains challenging even with advanced reconstruction techniques, which models scenes as undifferentiated wholes and fails to recognize complete object from partial observations. In this paper, we propose InstaScene, a new paradigm towards holistic 3D perception of complex scenes with a primary goal: decomposing arbitrary instances while ensuring complete reconstruction. To achieve precise decomposition, we develop a novel spatial contrastive learning by tracing rasterization of each instance across views, significantly enhancing semantic supervision in cluttered scenes. To overcome incompleteness from limited observations, we introduce in-situ generation that harnesses valuable observations and geometric cues, effectively guiding 3D generative models to reconstruct complete instances that seamlessly align with the real world. Experiments on scene decomposition and object completion across complex real-world and synthetic scenes demonstrate that our method achieves superior decomposition accuracy while producing geometrically faithful and visually intact objects.

Benchmarks increasingly guide deployment, procurement and scientific screening, yet a score supports only the response it records, not necessarily the deployment action. We introduce deployment-complete benchmarking, which tests whether benchmark evidence determines a deployment action. A benchmark is complete for a claim exactly when the action is constant on each evidence fiber; mixed fibers expose missing deployment information, and completion curves quantify the evidence required to resolve ambiguity. In controlled response spaces, benchmark-channel conformal coverage of 94.98% transferred poorly to an unmeasured deployment channel (10.07%), whereas response-rank intervals achieved 94.91% coverage; even zero benchmark error certified only 45.4% of candidates at the largest residual size. Public audits revealed incompleteness, including 97.9% mixed Tox21 fibers and zero median certifiable fraction in main Matbench and JARVIS audits. In held-out replays, certify-then-acquire reduced false decisions from 1.19% to 0.027% in Tox21 and from 20.3% to 0.128% in JARVIS, while changing model choice and identifying deployment-relevant probes. Deployment-ready benchmarks should report evidence, supported actions, ambiguity and completion cost rather than scores alone.

Various recent methods attempt to implement rotation-invariant 3D deep learning by replacing the input coordinates of points with relative distances and angles. Due to the incompleteness of these low-level features, they have to undertake the expense of losing global information. In this paper, we propose the CRIN, namely Centrifugal Rotation-Invariant Network. CRIN directly takes the coordinates of points as input and transforms local points into rotation-invariant representations via centrifugal reference frames. Aided by centrifugal reference frames, each point corresponds to a discrete rotation so that the information of rotations can be implicitly stored in point features. Unfortunately, discrete points are far from describing the whole rotation space. We further introduce a continuous distribution for 3D rotations based on points. Furthermore, we propose an attention-based down-sampling strategy to sample points invariant to rotations. A relation module is adopted at last for reinforcing the long-range dependencies between sampled points and predicts the anchor point for unsupervised rotation estimation. Extensive experiments show that our method achieves rotation invariance, accurately estimates the object rotation, and obtains state-of-the-art results on rotation-augmented classification and part segmentation. Ablation studies validate the effectiveness of the network design.

We study reasoning in Rule-Governed Decision Tasks (RGDTs), where models apply external rules to case facts and justify decisions, as required in policy, contract, and compliance settings. Beyond the deductive capability emphasized by standard mathematical and logical reasoning tasks, RGDTs require interpreting rules and their applicability, assessing conditions from evidence, combining judgments under rules and exceptions, and providing checkable justifications. These demands motivate a benchmark assessing both decisions and their stated grounds. We introduce RGDT-Bench, providing 202.1K condition-level supervision slots across four task tracks and eight supported task-probe combinations that vary access to supporting information. Label-blind extraction and deterministic checks produce labels for warrant completeness: source-referenced coverage and consistency of stated decision grounds. The benchmark attributes failures to four process layers: rule use, condition, evidence, and aggregation, and checks the final outcome. Among evaluable correct responses, warrant incompleteness averages 40.2% across six evaluated LLMs and supported task-probe combinations. Such warrant incompleteness poses potential safety risks and remains difficult to detect: the best of seventeen existing evaluators reaches only 57.69% (random: 50%) task-averaged area under the receiver operating characteristic curve (AUROC). To address this difficulty, we train a simple reward model with warrant supervision. It achieves 69.24% task-averaged AUROC among correct answers, exceeding the matched outcome-supervised baseline by 10.37 pp (percentage points) and the best existing evaluator by 11.55 pp. Beyond completeness assessment, the model outperforms both outcome-supervised baselines across nearly all response-selection comparisons, supporting RGDT-Bench's warrant supervision for RGDT reasoning.

In an era of model and data proliferation in machine learning/AI especially marked by the rapid advancement of open-sourced technologies, there arises a critical need for standardized consistent documentation. Our work addresses the information incompleteness in current human-generated model and data cards. We propose an automated generation approach using Large Language Models (LLMs). Our key contributions include the establishment of CardBench, a comprehensive dataset aggregated from over 4.8k model cards and 1.4k data cards, coupled with the development of the CardGen pipeline comprising a two-step retrieval process. Our approach exhibits enhanced completeness, objectivity, and faithfulness in generated model and data cards, a significant step in responsible AI documentation practices ensuring better accountability and traceability.

The capabilities of Large Language Models (LLMs) in code generation, particularly for implementing target functionalities from natural language descriptions, have been extensively studied. As an alternative form of natural language, input-output examples (I/O examples) provide an accessible, unambiguous, and flexible way to describe functionalities, but the diversity, sparseness, and incompleteness of I/O examples also place challenges on understanding and implementing requirements. Therefore, generating code from input-output examples (i.e., example-based code generation) provides a new perspective, allowing us to evaluate LLMs' capability to infer target functionalities from limited information and to process new-form requirements. However, related research about LLMs in example-based code generation remains largely unexplored. To fill this gap, this paper presents the first comprehensive study on example-based code generation using LLMs. To address the incorrectness caused by the incompleteness of I/O examples, we adopt an iterative evaluation framework and formalize the objective of example-based code generation as two sequential sub-objectives: generating code conforming to given examples and generating code that successfully implements the target functionalities from (iteratively) given examples. We assess six state-of-the-art LLMs using a new benchmark of 168 diverse target functionalities. The results demonstrate that when requirements were described using iterative I/O examples rather than natural language, the LLMs' score decreased by over 60%, indicating that example-based code generation remains challenging for the evaluated LLMs. More interestingly, the vast majority (even over 95%) of successfully implemented functionalities are achieved in the first round of iterations, suggesting that the LLMs struggle to effectively utilize the iteratively supplemented requirements.

The J-region Asymptotic Giant Branch (JAGB) is an overdensity of stars in the near-infrared, attributed to carbon-rich asymptotic giant branch stars, and recently used as a standard candle for measuring extragalactic distances and the Hubble constant. Using JWST in Cycle 2, we extend JAGB measurements to 6 hosts of 9 Type Ia supernovae (SNe Ia) (NGC 2525, NGC 3147, NGC 3370, NGC 3447, NGC 5468, and NGC 5861), with two at D sim 40 Mpc, all calibrated by the maser host NGC 4258. We investigate the effects of incompleteness and find that we are unable to recover a robust JAGB measurement in one of the two most distant hosts at R sim 40 Mpc, NGC 3147. We compile all JWST JAGB observations in SNe Ia hosts, 15 galaxies hosting 18 SNe Ia, from the SH0ES and CCHP programs and employ all literature measures (mode, mean, median, model). We find no significant mean difference between these distances and those from HST Cepheids, -0.03pm0.02 (stat) pm 0.05 (sys) mag. We find a difference of 0.11 pm 0.02 mag between JAGB mode measurements in the CCHP analyses of two fields in NGC 4258, a feature also seen in two SH0ES fields (see field-to-field variations in Li et al. 2024a), indicating significant field-to-field variation of JAGB measurements in NGC 4258 which produce a large absolute calibration uncertainty. Variations are also seen in the shape of the JAGB LF across galaxies so that different measures produce different values of the Hubble constant. We look for but do not (yet) find a standardizing relation between JAGB LF skew or color dependence and the apparent variation. Using the middle result of all JAGB measures to calibrate SNe Ia yields a Hubble constant of H_0 = 73.3 pm 1.4 (stat) pm 2.0 (sys) km/s/Mpc with the systematic dominated by apparent differences across NGC 4258 calibrating fields or their measures.

In the rapidly evolving field of metabolic engineering, the quest for efficient and precise gene target identification for metabolite production enhancement presents significant challenges. Traditional approaches, whether knowledge-based or model-based, are notably time-consuming and labor-intensive, due to the vast scale of research literature and the approximation nature of genome-scale metabolic model (GEM) simulations. Therefore, we propose a new task, Gene-Metabolite Association Prediction based on metabolic graphs, to automate the process of candidate gene discovery for a given pair of metabolite and candidate-associated genes, as well as presenting the first benchmark containing 2474 metabolites and 1947 genes of two commonly used microorganisms Saccharomyces cerevisiae (SC) and Issatchenkia orientalis (IO). This task is challenging due to the incompleteness of the metabolic graphs and the heterogeneity among distinct metabolisms. To overcome these limitations, we propose an Interactive Knowledge Transfer mechanism based on Metabolism Graph (IKT4Meta), which improves the association prediction accuracy by integrating the knowledge from different metabolism graphs. First, to build a bridge between two graphs for knowledge transfer, we utilize Pretrained Language Models (PLMs) with external knowledge of genes and metabolites to help generate inter-graph links, significantly alleviating the impact of heterogeneity. Second, we propagate intra-graph links from different metabolic graphs using inter-graph links as anchors. Finally, we conduct the gene-metabolite association prediction based on the enriched metabolism graphs, which integrate the knowledge from multiple microorganisms. Experiments on both types of organisms demonstrate that our proposed methodology outperforms baselines by up to 12.3% across various link prediction frameworks.

Recent work, using the Biasing Features metric, labels a CoT as unfaithful if it omits a prompt-injected hint that affected the prediction. We argue this metric confuses unfaithfulness with incompleteness, the lossy compression needed to turn distributed transformer computation into a linear natural language narrative. On multi-hop reasoning tasks with Llama-3 and Gemma-3, many CoTs flagged as unfaithful by Biasing Features are judged faithful by other metrics, exceeding 50% in some models. With a new faithful@k metric, we show that larger inference-time token budgets greatly increase hint verbalization (up to 90% in some settings), suggesting much apparent unfaithfulness is due to tight token limits. Using Causal Mediation Analysis, we further show that even non-verbalized hints can causally mediate prediction changes through the CoT. We therefore caution against relying solely on hint-based evaluations and advocate a broader interpretability toolkit, including causal mediation and corruption-based metrics.

Generative AI agents equate understanding with resolving explicit queries, an assumption that confines interaction to what users can articulate. This assumption breaks down when users themselves lack awareness of what is missing, risky, or worth considering. In such conditions, proactivity is not merely an efficiency enhancement, but an epistemic necessity. We refer to this condition as epistemic incompleteness: where progress depends on engaging with unknown unknowns for effective partnership. Existing approaches to proactivity remain narrowly anticipatory, extrapolating from past behavior and presuming that goals are already well defined, thereby failing to support users meaningfully. However, surfacing possibilities beyond a user's current awareness is not inherently beneficial. Unconstrained proactive interventions can misdirect attention, overwhelm users, or introduce harm. Proactive agents, therefore, require behavioral grounding: principled constraints on when, how, and to what extent an agent should intervene. We advance the position that generative proactivity must be grounded both epistemically and behaviorally. Drawing on the philosophy of ignorance and research on proactive behavior, we argue that these theories offer critical guidance for designing agents that can engage responsibly and foster meaningful partnerships.

In this paper, we propose Extend3D, a training-free pipeline for 3D scene generation from a single image, built upon an object-centric 3D generative model. To overcome the limitations of fixed-size latent spaces in object-centric models for representing wide scenes, we extend the latent space in the x and y directions. Then, by dividing the extended latent space into overlapping patches, we apply the object-centric 3D generative model to each patch and couple them at each time step. Since patch-wise 3D generation with image conditioning requires strict spatial alignment between image and latent patches, we initialize the scene using a point cloud prior from a monocular depth estimator and iteratively refine occluded regions through SDEdit. We discovered that treating the incompleteness of 3D structure as noise during 3D refinement enables 3D completion via a concept, which we term under-noising. Furthermore, to address the sub-optimality of object-centric models for sub-scene generation, we optimize the extended latent during denoising, ensuring that the denoising trajectories remain consistent with the sub-scene dynamics. To this end, we introduce 3D-aware optimization objectives for improved geometric structure and texture fidelity. We demonstrate that our method yields better results than prior methods, as evidenced by human preference and quantitative experiments.

Composed Image Retrieval (CIR) retrieves target images using a reference image paired with modification text. Despite rapid advances, all existing methods and datasets operate at the image level -- a single reference image plus modification text in, a single target image out -- while real e-commerce users reason about products shown from multiple viewpoints. We term this mismatch View Incompleteness and formally define a new Multi-View CIR task that generalizes standard CIR from image-level to product-level retrieval. To support this task, we construct FashionMV, the first large-scale multi-view fashion dataset for product-level CIR, comprising 127K products, 472K multi-view images, and over 220K CIR triplets, built through a fully automated pipeline leveraging large multimodal models. We further propose ProCIR (Product-level Composed Image Retrieval), a modeling framework built upon a multimodal large language model that employs three complementary mechanisms -- two-stage dialogue, caption-based alignment, and chain-of-thought guidance -- together with an optional supervised fine-tuning (SFT) stage that injects structured product knowledge prior to contrastive training. Systematic ablation across 16 configurations on three fashion benchmarks reveals that: (1) alignment is the single most critical mechanism; (2) the two-stage dialogue architecture is a prerequisite for effective alignment; and (3) SFT and chain-of-thought serve as partially redundant knowledge injection paths. Our best 0.8B-parameter model outperforms all baselines, including general-purpose embedding models 10x its size. The dataset, model, and code are publicly available at https://github.com/yuandaxia2001/FashionMV.

Retrieval-Augmented Generation for software engineering often relies on vector similarity search, which captures topical similarity but can fail on multi-hop architectural reasoning such as controller to service to repository chains, interface-driven wiring, and inheritance. This paper benchmarks three retrieval pipelines on Java codebases (Shopizer, with additional runs on ThingsBoard and OpenMRS Core): (A) vector-only No-Graph RAG, (B) an LLM-generated knowledge graph RAG (LLM-KB), and (C) a deterministic AST-derived knowledge graph RAG (DKB) built with Tree-sitter and bidirectional traversal. Using 15 architecture and code-tracing queries per repository, we measure indexing time, query latency, corpus coverage, cost, and answer correctness. DKB builds its graph in seconds, while LLM-KB requires much longer graph generation. LLM-KB also shows indexing incompleteness: on Shopizer, 377 files are skipped or missed, reducing embedded chunk coverage and graph size compared to DKB. End-to-end cost is modest for DKB relative to the vector-only baseline but much higher for LLM-KB, especially as repository scale increases. Query latency is similar for No-Graph and DKB, while LLM-KB is slower and more variable. On the Shopizer question suite, DKB achieves the highest correctness, LLM-KB is close behind, and the vector-only baseline performs worst on upstream architectural queries and has the highest hallucination risk. Overall, deterministic AST-derived graphs provide more reliable coverage and multi-hop grounding than LLM-extracted graphs at substantially lower indexing cost.

A common goal of mechanistic interpretability is to decompose the activations of neural networks into features: interpretable properties of the input computed by the model. Sparse autoencoders (SAEs) are a popular method for finding these features in LLMs, and it has been postulated that they can be used to find a canonical set of units: a unique and complete list of atomic features. We cast doubt on this belief using two novel techniques: SAE stitching to show they are incomplete, and meta-SAEs to show they are not atomic. SAE stitching involves inserting or swapping latents from a larger SAE into a smaller one. Latents from the larger SAE can be divided into two categories: novel latents, which improve performance when added to the smaller SAE, indicating they capture novel information, and reconstruction latents, which can replace corresponding latents in the smaller SAE that have similar behavior. The existence of novel features indicates incompleteness of smaller SAEs. Using meta-SAEs -- SAEs trained on the decoder matrix of another SAE -- we find that latents in SAEs often decompose into combinations of latents from a smaller SAE, showing that larger SAE latents are not atomic. The resulting decompositions are often interpretable; e.g. a latent representing ``Einstein'' decomposes into ``scientist'', ``Germany'', and ``famous person''. Even if SAEs do not find canonical units of analysis, they may still be useful tools. We suggest that future research should either pursue different approaches for identifying such units, or pragmatically choose the SAE size suited to their task. We provide an interactive dashboard to explore meta-SAEs: https://metasaes.streamlit.app/

Real-world Knowledge Graphs (KGs) often suffer from incompleteness, which limits their potential performance. Knowledge Graph Completion (KGC) techniques aim to address this issue. However, traditional KGC methods are computationally intensive and impractical for large-scale KGs, necessitating the learning of dense node embeddings and computing pairwise distances. Generative transformer-based language models (e.g., T5 and recent KGT5) offer a promising solution as they can predict the tail nodes directly. In this study, we propose to include node neighborhoods as additional information to improve KGC methods based on language models. We examine the effects of this imputation and show that, on both inductive and transductive Wikidata subsets, our method outperforms KGT5 and conventional KGC approaches. We also provide an extensive analysis of the impact of neighborhood on model prediction and show its importance. Furthermore, we point the way to significantly improve KGC through more effective neighborhood selection.

As a crucial extension of entity alignment (EA), multi-modal entity alignment (MMEA) aims to identify identical entities across disparate knowledge graphs (KGs) by exploiting associated visual information. However, existing MMEA approaches primarily concentrate on the fusion paradigm of multi-modal entity features, while neglecting the challenges presented by the pervasive phenomenon of missing and intrinsic ambiguity of visual images. In this paper, we present a further analysis of visual modality incompleteness, benchmarking latest MMEA models on our proposed dataset MMEA-UMVM, where the types of alignment KGs covering bilingual and monolingual, with standard (non-iterative) and iterative training paradigms to evaluate the model performance. Our research indicates that, in the face of modality incompleteness, models succumb to overfitting the modality noise, and exhibit performance oscillations or declines at high rates of missing modality. This proves that the inclusion of additional multi-modal data can sometimes adversely affect EA. To address these challenges, we introduce UMAEA , a robust multi-modal entity alignment approach designed to tackle uncertainly missing and ambiguous visual modalities. It consistently achieves SOTA performance across all 97 benchmark splits, significantly surpassing existing baselines with limited parameters and time consumption, while effectively alleviating the identified limitations of other models. Our code and benchmark data are available at https://github.com/zjukg/UMAEA.

As Large Language Models become more ubiquitous across domains, it becomes important to examine their inherent limitations critically. This work argues that hallucinations in language models are not just occasional errors but an inevitable feature of these systems. We demonstrate that hallucinations stem from the fundamental mathematical and logical structure of LLMs. It is, therefore, impossible to eliminate them through architectural improvements, dataset enhancements, or fact-checking mechanisms. Our analysis draws on computational theory and Godel's First Incompleteness Theorem, which references the undecidability of problems like the Halting, Emptiness, and Acceptance Problems. We demonstrate that every stage of the LLM process-from training data compilation to fact retrieval, intent classification, and text generation-will have a non-zero probability of producing hallucinations. This work introduces the concept of Structural Hallucination as an intrinsic nature of these systems. By establishing the mathematical certainty of hallucinations, we challenge the prevailing notion that they can be fully mitigated.

Current auto-regressive mesh generation methods suffer from issues such as incompleteness, insufficient detail, and poor generalization. In this paper, we propose an Auto-regressive Auto-encoder (ArAE) model capable of generating high-quality 3D meshes with up to 4,000 faces at a spatial resolution of 512^3. We introduce a novel mesh tokenization algorithm that efficiently compresses triangular meshes into 1D token sequences, significantly enhancing training efficiency. Furthermore, our model compresses variable-length triangular meshes into a fixed-length latent space, enabling training latent diffusion models for better generalization. Extensive experiments demonstrate the superior quality, diversity, and generalization capabilities of our model in both point cloud and image-conditioned mesh generation tasks.

Agent-compiled knowledge bases provide persistent external knowledge for large language model (LLM) agents in open-ended, knowledge-intensive downstream tasks. Yet their quality is systematically limited by incompleteness, incorrectness, and redundancy, manifested as missing evidence or cross-document links, low-confidence or imprecise claims, and ambiguous or coreference resolution issues. Such defects compound under iterative use, degrading retrieval fidelity and downstream task performance. We present DeepRefine, a general LLM-based reasoning model for agent-compiled knowledge refinement that improves the quality of any pre-constructed knowledge bases with user queries to make it more suitable for the downstream tasks. DeepRefine performs multi-turn interactions with the knowledge base and conducts abductive diagnosis over interaction history, localizes likely defects, and executes targeted refinement actions for incremental knowledge base updates. To optimize refinement policies of DeepRefine without gold references, we introduce a Gain-Beyond-Draft (GBD) reward and train the reasoning process end-to-end via reinforcement learning. Extensive experiments demonstrate consistent downstream gains over strong baselines.

The task of zero-shot commonsense question answering evaluates models on their capacity to reason about general scenarios beyond those presented in specific datasets. Existing approaches for tackling this task leverage external knowledge from CommonSense Knowledge Bases (CSKBs) by pretraining the model on synthetic QA pairs constructed from CSKBs. In these approaches, negative examples (distractors) are formulated by randomly sampling from CSKBs using fairly primitive keyword constraints. However, two bottlenecks limit these approaches: the inherent incompleteness of CSKBs limits the semantic coverage of synthetic QA pairs, and the lack of human annotations makes the sampled negative examples potentially uninformative and contradictory. To tackle these limitations above, we propose Conceptualization-Augmented Reasoner (CAR), a zero-shot commonsense question-answering framework that fully leverages the power of conceptualization. Specifically, CAR abstracts a commonsense knowledge triple to many higher-level instances, which increases the coverage of CSKB and expands the ground-truth answer space, reducing the likelihood of selecting false-negative distractors. Extensive experiments demonstrate that CAR more robustly generalizes to answering questions about zero-shot commonsense scenarios than existing methods, including large language models, such as GPT3.5 and ChatGPT. Our codes, data, and model checkpoints are available at https://github.com/HKUST-KnowComp/CAR.

As deep vision models' popularity rapidly increases, there is a growing emphasis on explanations for model predictions. The inherently explainable attribution method aims to enhance the understanding of model behavior by identifying the important regions in images that significantly contribute to predictions. It is achieved by cooperatively training a selector (generating an attribution map to identify important features) and a predictor (making predictions using the identified features). Despite many advancements, existing methods suffer from the incompleteness problem, where discriminative features are masked out, and the interlocking problem, where the non-optimized selector initially selects noise, causing the predictor to fit on this noise and perpetuate the cycle. To address these problems, we introduce a new objective that discourages the presence of discriminative features in the masked-out regions thus enhancing the comprehensiveness of feature selection. A pre-trained detector is introduced to detect discriminative features in the masked-out region. If the selector selects noise instead of discriminative features, the detector can observe and break the interlocking situation by penalizing the selector. Extensive experiments show that our model makes accurate predictions with higher accuracy than the regular black-box model, and produces attribution maps with high feature coverage, localization ability, fidelity and robustness. Our code will be available at https://github.com/Zood123/COMET{https://github.com/Zood123/COMET}.

The acute phase of the Covid-19 pandemic has made apparent the need for decision support based upon accurate epidemic modeling. This process is substantially hampered by under-reporting of cases and related data incompleteness issues. In this article we adopt the Bayesian paradigm and synthesize publicly available data via a discrete-time stochastic epidemic modeling framework. The models allow for estimating the total number of infections while accounting for the endemic phase of the pandemic. We assess the prediction of the infection rate utilizing mobility information, notably the principal components of the mobility data. We evaluate variational Bayes in this context and find that Hamiltonian Monte Carlo offers a robust inference alternative for such models. We elaborate upon vector analysis of the epidemic dynamics, thus enriching the traditional tools used for decision making. In particular, we show how certain 2-dimensional plots on the phase plane may yield intuitive information regarding the speed and the type of transmission dynamics. We investigate the potential of a two-stage analysis as a consequence of cutting feedback, for inference on certain functionals of the model parameters. Finally, we show that a point mass on critical parameters is overly restrictive and investigate informative priors as a suitable alternative.

Knowledge Graph-based Retrieval-Augmented Generation (KG-RAG) is an increasingly explored approach for combining the reasoning capabilities of large language models with the structured evidence of knowledge graphs. However, current evaluation practices fall short: existing benchmarks often include questions that can be directly answered using existing triples in KG, making it unclear whether models perform reasoning or simply retrieve answers directly. Moreover, inconsistent evaluation metrics and lenient answer matching criteria further obscure meaningful comparisons. In this work, we introduce a general method for constructing benchmarks, together with an evaluation protocol, to systematically assess KG-RAG methods under knowledge incompleteness. Our empirical results show that current KG-RAG methods have limited reasoning ability under missing knowledge, often rely on internal memorization, and exhibit varying degrees of generalization depending on their design.

Large language models (LLMs) achieve strong results on knowledge graph question answering (KGQA), but most benchmarks assume complete knowledge graphs (KGs) where direct supporting triples exist. This reduces evaluation to shallow retrieval and overlooks the reality of incomplete KGs, where many facts are missing and answers must be inferred from existing facts. We bridge this gap by proposing a methodology for constructing benchmarks under KG incompleteness, which removes direct supporting triples while ensuring that alternative reasoning paths required to infer the answer remain. Experiments on benchmarks constructed using our methodology show that existing methods suffer consistent performance degradation under incompleteness, highlighting their limited reasoning ability. To overcome this limitation, we present the Adaptive Graph Reasoning Agent (GR-Agent). It first constructs an interactive environment from the KG, and then formalizes KGQA as agent environment interaction within this environment. GR-Agent operates over an action space comprising graph reasoning tools and maintains a memory of potential supporting reasoning evidence, including relevant relations and reasoning paths. Extensive experiments demonstrate that GR-Agent outperforms non-training baselines and performs comparably to training-based methods under both complete and incomplete settings.

Traditional fixed test sets fall short in evaluating open-ended capabilities of foundation models. To address this, we propose ONEBench(OpeN-Ended Benchmarking), a new testing paradigm that consolidates individual evaluation datasets into a unified, ever-expanding sample pool. ONEBench allows users to generate custom, open-ended evaluation benchmarks from this pool, corresponding to specific capabilities of interest. By aggregating samples across test sets, ONEBench enables the assessment of diverse capabilities beyond those covered by the original test sets, while mitigating overfitting and dataset bias. Most importantly, it frames model evaluation as a collective process of selecting and aggregating sample-level tests. The shift from task-specific benchmarks to ONEBench introduces two challenges: (1)heterogeneity and (2)incompleteness. Heterogeneity refers to the aggregation over diverse metrics, while incompleteness describes comparing models evaluated on different data subsets. To address these challenges, we explore algorithms to aggregate sparse measurements into reliable model scores. Our aggregation algorithm ensures identifiability(asymptotically recovering ground-truth scores) and rapid convergence, enabling accurate model ranking with less data. On homogenous datasets, we show our aggregation algorithm provides rankings that highly correlate with those produced by average scores. We also demonstrate robustness to ~95% of measurements missing, reducing evaluation cost by up to 20x with little-to-no change in model rankings. We introduce ONEBench-LLM for language models and ONEBench-LMM for vision-language models, unifying evaluations across these domains. Overall, we present a technique for open-ended evaluation, which can aggregate over incomplete, heterogeneous sample-level measurements to continually grow a benchmark alongside the rapidly developing foundation models.

Factual question answering (QA) typically assumes a single canonical answer, obscuring whether large language models (LLMs) retain divergent accounts of long-tail facts. To address this gap, we introduce ElephantBench, a closed-book knowledge probe comprising 1,094 questions generated through an auditable graph-based pipeline. The pipeline retrieves related documents from a low-exposure web corpus, identifies naturally occurring disagreements, and converts them into multi-account QA records. Each answer is verified against the originating documents and authoritative public web sources and is then reviewed by human annotators. Across 32 models, even the strongest model recovers both accounts on only 52.4% of questions, while on nearly all remaining questions it recalls one account but omits the other. Scaling model size and inference-time reasoning improve recall but do not eliminate this incompleteness. Corpus analysis further shows that exposure imbalance favors the dominant account, whereas greater minority-side exposure is associated with more complete recall. These findings establish ElephantBench as a reproducible knowledge probe for diagnosing epistemic myopia in parametric memory. More broadly, our graph-based benchmark construction pipeline provides an efficient and scalable way to turn long-tail corpora into source-traceable knowledge probes, supporting efforts to evaluate and advance the epistemic rigour of next-generation LLMs. Code is available at https://github.com/Tencent/ElephantBench.

This paper addresses a regression problem in which output label values are the results of sensing the magnitude of a phenomenon. A low value of such labels can mean either that the actual magnitude of the phenomenon was low or that the sensor made an incomplete observation. This leads to a bias toward lower values in labels and the resultant learning because labels may have lower values due to incomplete observations, even if the actual magnitude of the phenomenon was high. Moreover, because an incomplete observation does not provide any tags indicating incompleteness, we cannot eliminate or impute them. To address this issue, we propose a learning algorithm that explicitly models incomplete observations corrupted with an asymmetric noise that always has a negative value. We show that our algorithm is unbiased as if it were learned from uncorrupted data that does not involve incomplete observations. We demonstrate the advantages of our algorithm through numerical experiments.

The CoNLL-03 corpus is arguably the most well-known and utilized benchmark dataset for named entity recognition (NER). However, prior works found significant numbers of annotation errors, incompleteness, and inconsistencies in the data. This poses challenges to objectively comparing NER approaches and analyzing their errors, as current state-of-the-art models achieve F1-scores that are comparable to or even exceed the estimated noise level in CoNLL-03. To address this issue, we present a comprehensive relabeling effort assisted by automatic consistency checking that corrects 7.0% of all labels in the English CoNLL-03. Our effort adds a layer of entity linking annotation both for better explainability of NER labels and as additional safeguard of annotation quality. Our experimental evaluation finds not only that state-of-the-art approaches reach significantly higher F1-scores (97.1%) on our data, but crucially that the share of correct predictions falsely counted as errors due to annotation noise drops from 47% to 6%. This indicates that our resource is well suited to analyze the remaining errors made by state-of-the-art models, and that the theoretical upper bound even on high resource, coarse-grained NER is not yet reached. To facilitate such analysis, we make CleanCoNLL publicly available to the research community.

Accurate completion and denoising of roof height maps are crucial to reconstructing high-quality 3D buildings. Repairing sparse points can enhance low-cost sensor use and reduce UAV flight overlap. RoofDiffusion is a new end-to-end self-supervised diffusion technique for robustly completing, in particular difficult, roof height maps. RoofDiffusion leverages widely-available curated footprints and can so handle up to 99\% point sparsity and 80\% roof area occlusion (regional incompleteness). A variant, No-FP RoofDiffusion, simultaneously predicts building footprints and heights. Both quantitatively outperform state-of-the-art unguided depth completion and representative inpainting methods for Digital Elevation Models (DEM), on both a roof-specific benchmark and the BuildingNet dataset. Qualitative assessments show the effectiveness of RoofDiffusion for datasets with real-world scans including AHN3, Dales3D, and USGS 3DEP LiDAR. Tested with the leading City3D algorithm, preprocessing height maps with RoofDiffusion noticeably improves 3D building reconstruction. RoofDiffusion is complemented by a new dataset of 13k complex roof geometries, focusing on long-tail issues in remote sensing; a novel simulation of tree occlusion; and a wide variety of large-area roof cut-outs for data augmentation and benchmarking.

Retrieval-augmented generation (RAG) has proven effective in integrating knowledge into large language models (LLMs). However, conventional RAGs struggle to capture complex relationships between pieces of knowledge, limiting their performance in intricate reasoning that requires integrating knowledge from multiple sources. Recently, graph-enhanced retrieval augmented generation (GraphRAG) builds graph structure to explicitly model these relationships, enabling more effective and efficient retrievers. Nevertheless, its performance is still hindered by the noise and incompleteness within the graph structure. To address this, we introduce GFM-RAG, a novel graph foundation model (GFM) for retrieval augmented generation. GFM-RAG is powered by an innovative graph neural network that reasons over graph structure to capture complex query-knowledge relationships. The GFM with 8M parameters undergoes a two-stage training process on large-scale datasets, comprising 60 knowledge graphs with over 14M triples and 700k documents. This results in impressive performance and generalizability for GFM-RAG, making it the first graph foundation model applicable to unseen datasets for retrieval without any fine-tuning required. Extensive experiments on three multi-hop QA datasets and seven domain-specific RAG datasets demonstrate that GFM-RAG achieves state-of-the-art performance while maintaining efficiency and alignment with neural scaling laws, highlighting its potential for further improvement.

Visual reasoning in multimodal large language models (MLLMs) has primarily been studied in static, fully observable settings, limiting their effectiveness in real-world environments where information is often incomplete due to occlusion or limited field of view. Humans, in contrast, actively explore and interact with their environment-moving, examining, and manipulating objects-to gather information through a closed-loop process integrating perception, reasoning, and action. Inspired by this human capability, we introduce the Active Visual Reasoning (AVR) task, extending visual reasoning to partially observable, interactive environments. AVR necessitates agents to: (1) actively acquire information via sequential physical actions, (2) integrate observations across multiple steps for coherent reasoning, and (3) dynamically adjust decisions based on evolving visual feedback. To rigorously evaluate AVR, we introduce CLEVR-AVR, a simulation benchmark featuring multi-round interactive environments designed to assess both reasoning correctness and information-gathering efficiency. We present AVR-152k, a large-scale dataset that offers rich Chain-of-Thought (CoT) annotations detailing iterative reasoning for uncertainty identification, action-conditioned information gain prediction, and information-maximizing action selection, crucial for training agents in a higher-order Markov Decision Process. Building on this, we develop PhysVLM-AVR, an MLLM achieving state-of-the-art performance on CLEVR-AVR, embodied reasoning (OpenEQA, RoboVQA), and passive visual reasoning (GeoMath, Geometry30K). Our analysis also reveals that current embodied MLLMs, despite detecting information incompleteness, struggle to actively acquire and integrate new information through interaction, highlighting a fundamental gap in active reasoning capabilities.

Industrial quality inspection plays a critical role in modern manufacturing by identifying defective products during production. While single-modality approaches using either 3D point clouds or 2D RGB images suffer from information incompleteness, multimodal anomaly detection offers promise through the complementary fusion of crossmodal data. However, existing methods face challenges in effectively integrating unimodal results and improving discriminative power. To address these limitations, we first reinterpret memory bank-based anomaly scores in single modalities as isotropic Euclidean distances in local feature spaces. Dynamically evolving from Euclidean metrics, we propose a novel Geometry-Guided Score Fusion (G^{2}SF) framework that progressively learns an anisotropic local distance metric as a unified score for the fusion task. Through a geometric encoding operator, a novel Local Scale Prediction Network (LSPN) is proposed to predict direction-aware scaling factors that characterize first-order local feature distributions, thereby enhancing discrimination between normal and anomalous patterns. Additionally, we develop specialized loss functions and score aggregation strategy from geometric priors to ensure both metric generalization and efficacy. Comprehensive evaluations on the MVTec-3D AD and Eyecandies datasets demonstrate the state-of-the-art detection performance of our method, and detailed ablation analysis validates each component's contribution. Our code is available at https://github.com/ctaoaa/G2SF.

As large language models reshape scientific research, literature retrieval faces a twofold challenge: ensuring source authenticity while maintaining a deep comprehension of academic search intents. While reliable, traditional keyword-centric search fails to capture complex research intents. Frontier LLMs can handle complex research intents, but their high cost and tendency to hallucinate remain key limitations. Here we introduce PaSaMaster, a self-evolving agentic literature retrieval system that produces relevance-scored paper rankings with evidence-grounded recommendations through iterative intent analysis, retrieval, and ranking. It is built on three key designs. First, it transforms literature retrieval from a one shot query--document matching problem into a search process that evolves over time, using ranked evidence to reveal gaps, refine intents, and guide follow-up searches. Second, it prevents hallucinated sources by treating retrieval as intent--paper relevance ranking rather than generation. Finally, PaSaMaster improves cost efficiency by separating planning from retrieval: a frontier LLM is used only for intent understanding, while large scale retrieval and relevance scoring are delegated to customized corpora and lightweight models. Evaluated on the PaSaMaster Benchmark across 38 scientific disciplines, our system exposes the severe inaccuracy and incompleteness of traditional keyword retrieval (improving F1-score by 15.6X) and the unreliability of generative LLMs (which exhibit hallucination rates up to 37.79%). Remarkably, PaSaMaster outperforms GPT-5.2 by 30.0% at a mere 1% of the computational cost while ensuring zero source hallucination: https://github.com/sjtu-sai-agents/PaSaMaster

Scientific images function as critical evidence in research communication, yet their integrity faces unprecedented threats from AI-generated content that introduces subtle but consequential errors. Existing evaluation paradigms prove inadequate: perceptual quality metrics poorly correlate with scientific validity, while language models lack domain-specific verification capabilities. To address this gap, we propose the Scientific Image Utility and Upgradability Assessment (SIU^2A) framework, which introduces two complementary dimensions for scientific image evaluation. Utility encompasses error detection (identifying scientific inaccuracies) and correction feasibility (assessing whether errors can be reliably repaired). Upgradability measures the quality of correction. We categorize scientific image corruption into four fundamental types: Detail Distortion, Incompleteness, False Content, and Entity Confusion. Based on this taxonomy, we construct SIU^2A-Benchmark, a dataset with expert annotations for error identification and repair. The framework implements a two-stage evaluation protocol: the Utility stage evaluates error detection capability and repair instruction generation, while the Upgradability stage assesses whether corrections faithfully restore scientific validity without compromising existing accurate information. Experiments reveal that current multimodal systems exhibit significant limitations in both scientific error assessment and faithful correction, exposing a fundamental gap between visual perception and scientific usability.

We study the ability of state-of-the art models to answer constraint satisfaction queries for information retrieval (e.g., 'a list of ice cream shops in San Diego'). In the past, such queries were considered to be tasks that could only be solved via web-search or knowledge bases. More recently, large language models (LLMs) have demonstrated initial emergent abilities in this task. However, many current retrieval benchmarks are either saturated or do not measure constraint satisfaction. Motivated by rising concerns around factual incorrectness and hallucinations of LLMs, we present KITAB, a new dataset for measuring constraint satisfaction abilities of language models. KITAB consists of book-related data across more than 600 authors and 13,000 queries, and also offers an associated dynamic data collection and constraint verification approach for acquiring similar test data for other authors. Our extended experiments on GPT4 and GPT3.5 characterize and decouple common failure modes across dimensions such as information popularity, constraint types, and context availability. Results show that in the absence of context, models exhibit severe limitations as measured by irrelevant information, factual errors, and incompleteness, many of which exacerbate as information popularity decreases. While context availability mitigates irrelevant information, it is not helpful for satisfying constraints, identifying fundamental barriers to constraint satisfaction. We open source our contributions to foster further research on improving constraint satisfaction abilities of future models.

The ever-growing textual records of contemporary social issues, often discussed online with moral rhetoric, present both an opportunity and a challenge for studying how moral concerns are debated in real life. Moral foundations theory is a taxonomy of intuitions widely used in data-driven analyses of online content, but current computational tools to detect moral foundations suffer from the incompleteness and fragility of their lexicons and from poor generalization across data domains. In this paper, we fine-tune a large language model to measure moral foundations in text based on datasets covering news media and long- and short-form online discussions. The resulting model, called Mformer, outperforms existing approaches on the same domains by 4--12% in AUC and further generalizes well to four commonly used moral text datasets, improving by up to 17% in AUC. We present case studies using Mformer to analyze everyday moral dilemmas on Reddit and controversies on Twitter, showing that moral foundations can meaningfully describe people's stance on social issues and such variations are topic-dependent. Pre-trained model and datasets are released publicly. We posit that Mformer will help the research community quantify moral dimensions for a range of tasks and data domains, and eventually contribute to the understanding of moral situations faced by humans and machines.

The galaxy population is strongly bimodal in both colour and morphology, and the two measures correlate strongly, with most blue galaxies being late-types (spirals) and most early-types, typically ellipticals, being red. This observation has led to the use of colour as a convenient selection criteria to make samples which are then labelled by morphology. Such use of colour as a proxy for morphology results in necessarily impure and incomplete samples. In this paper, we make use of the morphological labels produced by Galaxy Zoo to measure how incomplete and impure such samples are, considering optical (ugriz), NUV and NIR (JHK) bands. The best single colour optical selection is found using a threshold of g-r = 0.742, but this still results in a sample where only 56% of red galaxies are smooth and 56% of smooth galaxies are red. Use of the NUV gives some improvement over purely optical bands, particularly for late-types, but still results in low purity/completeness for early-types. No significant improvement is found by adding NIR bands. With any two bands, including NUV, a sample of early-types with greater than two-thirds purity cannot be constructed. Advances in quantitative galaxy morphologies have made colour-morphology proxy selections largely unnecessary going forward; where such assumptions are still required, we recommend studies carefully consider the implications of sample incompleteness/impurity.

Multimodal large language models (MLLMs) are transforming the capabilities of graphical user interface (GUI) agents, facilitating their transition from controlled simulations to complex, real-world applications across various platforms. However, the effectiveness of these agents hinges on the robustness of their grounding capability. Current GUI agents predominantly utilize text-based representations such as HTML or accessibility trees, which, despite their utility, often introduce noise, incompleteness, and increased computational overhead. In this paper, we advocate a human-like embodiment for GUI agents that perceive the environment entirely visually and directly take pixel-level operations on the GUI. The key is visual grounding models that can accurately map diverse referring expressions of GUI elements to their coordinates on the GUI across different platforms. We show that a simple recipe, which includes web-based synthetic data and slight adaptation of the LLaVA architecture, is surprisingly effective for training such visual grounding models. We collect the largest dataset for GUI visual grounding so far, containing 10M GUI elements and their referring expressions over 1.3M screenshots, and use it to train UGround, a strong universal visual grounding model for GUI agents. Empirical results on six benchmarks spanning three categories (grounding, offline agent, and online agent) show that 1) UGround substantially outperforms existing visual grounding models for GUI agents, by up to 20% absolute, and 2) agents with UGround outperform state-of-the-art agents, despite the fact that existing agents use additional text-based input while ours only uses visual perception. These results provide strong support for the feasibility and promises of GUI agents that navigate the digital world as humans do.

Recent advancements have highlighted that Large Language Models (LLMs) are prone to hallucinations when solving complex reasoning problems, leading to erroneous results. To tackle this issue, researchers incorporate Knowledge Graphs (KGs) to improve the reasoning ability of LLMs. However, existing methods face two limitations: 1) they typically assume that all answers to the questions are contained in KGs, neglecting the incompleteness issue of KGs, and 2) they treat the KG as a static repository and overlook the implicit logical reasoning structures inherent in KGs. In this paper, we introduce SymAgent, an innovative neural-symbolic agent framework that achieves collaborative augmentation between KGs and LLMs. We conceptualize KGs as dynamic environments and transform complex reasoning tasks into a multi-step interactive process, enabling KGs to participate deeply in the reasoning process. SymAgent consists of two modules: Agent-Planner and Agent-Executor. The Agent-Planner leverages LLM's inductive reasoning capability to extract symbolic rules from KGs, guiding efficient question decomposition. The Agent-Executor autonomously invokes predefined action tools to integrate information from KGs and external documents, addressing the issues of KG incompleteness. Furthermore, we design a self-learning framework comprising online exploration and offline iterative policy updating phases, enabling the agent to automatically synthesize reasoning trajectories and improve performance. Experimental results demonstrate that SymAgent with weak LLM backbones (i.e., 7B series) yields better or comparable performance compared to various strong baselines. Further analysis reveals that our agent can identify missing triples, facilitating automatic KG updates.

Error slice discovery is crucial to diagnose and mitigate model errors. Current clustering or discrete attribute-based slice discovery methods face key limitations: 1) clustering results in incoherent slices, while assigning discrete attributes to slices leads to incomplete coverage of error patterns due to missing or insufficient attributes; 2) these methods lack complex reasoning, preventing them from fully explaining model biases; 3) they fail to integrate domain knowledge, limiting their usage in specialized fields \eg radiology. We propose\ladder (Language-Driven Discovery and Error Rectification), to address the limitations by: (1) leveraging the flexibility of natural language to address incompleteness, (2) employing LLM's latent domain knowledge and advanced reasoning to analyze sentences and derive testable hypotheses directly, identifying biased attributes, and form coherent error slices without clustering. Existing mitigation methods typically address only the worst-performing group, often amplifying errors in other subgroups. In contrast,\ladder generates pseudo attributes from the discovered hypotheses to mitigate errors across all biases without explicit attribute annotations or prior knowledge of bias. Rigorous evaluations on 6 datasets spanning natural and medical images -- comparing 200+ classifiers with diverse architectures, pretraining strategies, and LLMs -- show that\ladder consistently outperforms existing baselines in discovering and mitigating biases.

Image recaptioning is widely used to generate training datasets with enhanced quality for various multimodal tasks. Existing recaptioning methods typically rely on powerful multimodal large language models (MLLMs) to enhance textual descriptions, but often suffer from inaccuracies due to hallucinations and incompleteness caused by missing fine-grained details. To address these limitations, we propose RICO, a novel framework that refines captions through visual reconstruction. Specifically, we leverage a text-to-image model to reconstruct a caption into a reference image, and prompt an MLLM to identify discrepancies between the original and reconstructed images to refine the caption. This process is performed iteratively, further progressively promoting the generation of more faithful and comprehensive descriptions. To mitigate the additional computational cost induced by the iterative process, we introduce RICO-Flash, which learns to generate captions like RICO using DPO. Extensive experiments demonstrate that our approach significantly improves caption accuracy and completeness, outperforms most baselines by approximately 10% on both CapsBench and CompreCap. Code released at https://github.com/wangyuchi369/RICO.

Test-time scaling (TTS) has demonstrated remarkable success in enhancing large language models, yet its application to next-token prediction (NTP) autoregressive (AR) image generation remains largely uncharted. Existing TTS approaches for visual AR (VAR), which rely on frequent partial decoding and external reward models, are ill-suited for NTP-based image generation due to the inherent incompleteness of intermediate decoding results. To bridge this gap, we introduce ScalingAR, the first TTS framework specifically designed for NTP-based AR image generation that eliminates the need for early decoding or auxiliary rewards. ScalingAR leverages token entropy as a novel signal in visual token generation and operates at two complementary scaling levels: (i) Profile Level, which streams a calibrated confidence state by fusing intrinsic and conditional signals; and (ii) Policy Level, which utilizes this state to adaptively terminate low-confidence trajectories and dynamically schedule guidance for phase-appropriate conditioning strength. Experiments on both general and compositional benchmarks show that ScalingAR (1) improves base models by 12.5% on GenEval and 15.2% on TIIF-Bench, (2) efficiently reduces visual token consumption by 62.0% while outperforming baselines, and (3) successfully enhances robustness, mitigating performance drops by 26.0% in challenging scenarios.

Transformer-based large models excel in natural language processing and computer vision, but face severe computational inefficiencies due to the self-attention's quadratic complexity with input tokens. Recently, researchers have proposed a series of methods based on block selection and compression to alleviate this problem, but they either have issues with semantic incompleteness or poor training-inference efficiency. To comprehensively address these challenges, we propose ChunkLLM, a lightweight and pluggable training framework. Specifically, we introduce two components: QK Adapter (Q-Adapter and K-Adapter) and Chunk Adapter. The former is attached to each Transformer layer, serving dual purposes of feature compression and chunk attention acquisition. The latter operates at the bottommost layer of the model, functioning to detect chunk boundaries by leveraging contextual semantic information. During the training phase, the parameters of the backbone remain frozen, with only the QK Adapter and Chunk Adapter undergoing training. Notably, we design an attention distillation method for training the QK Adapter, which enhances the recall rate of key chunks. During the inference phase, chunk selection is triggered exclusively when the current token is detected as a chunk boundary, thereby accelerating model inference. Experimental evaluations are conducted on a diverse set of long-text and short-text benchmark datasets spanning multiple tasks. ChunkLLM not only attains comparable performance on short-text benchmarks but also maintains 98.64% of the performance on long-context benchmarks while preserving a 48.58% key-value cache retention rate. Particularly, ChunkLLM attains a maximum speedup of 4.48x in comparison to the vanilla Transformer in the processing of 120K long texts.

Large Language Models (LLMs) represent a promising frontier for recommender systems, yet their development has been impeded by the absence of predictable scaling laws, which are crucial for guiding research and optimizing resource allocation. We hypothesize that this may be attributed to the inherent noise, bias, and incompleteness of raw user interaction data in prior continual pre-training (CPT) efforts. This paper introduces a novel, layered framework for generating high-quality synthetic data that circumvents such issues by creating a curated, pedagogical curriculum for the LLM. We provide powerful, direct evidence for the utility of our curriculum by showing that standard sequential models trained on our principled synthetic data significantly outperform (+130% on recall@100 for SasRec) models trained on real data in downstream ranking tasks, demonstrating its superiority for learning generalizable user preference patterns. Building on this, we empirically demonstrate, for the first time, robust power-law scaling for an LLM that is continually pre-trained on our high-quality, recommendation-specific data. Our experiments reveal consistent and predictable perplexity reduction across multiple synthetic data modalities. These findings establish a foundational methodology for reliable scaling LLM capabilities in the recommendation domain, thereby shifting the research focus from mitigating data deficiencies to leveraging high-quality, structured information.

The large and chemically diverse GMTKN55 benchmark was used as a training set for parametrizing composite wave function thermochemistry protocols akin to G4(MP2)XK theory (Chan et al, JCTC 2019, 15, 4478-4484). Even after reparametrization, the GMTKN55 WTMAD2 (weighted mean absolute deviation, type 2) for G4(MP2)-XK is actually inferior to that of the best rung-4 DFT functional, wB97M-V. By increasing the basis set for the MP2 part to def2-QZVPPD, we were able to substantially improve performance at modest cost (if an RI-MP2 approximation is made), with WTMAD2 for this G4(MP2)-XK-D method now comparable to the better rung-5 functionals (albeit at greater cost). A three-tier approach with a scaled MP3/def2-TZVPP intermediate step, however, leads to a G4(MP3)-D method that is markedly superior to even the best double hybrids wB97M(2) and revDSD-PBEP86-D4. Evaluating the CCSD(T) component with a triple-zeta, rather than split-valence, basis set yields only a modest further improvement that is incommensurate with the drastic increase in computational cost. G4(MP3)-D and G4(MP2)- XK-D have about 40% better WTMAD2, at similar or lower computational cost, than their counterparts G4 and G4(MP2), respectively: detailed comparison reveals that the difference lies in larger molecules due to basis set incompleteness error. An E2/ {T,Q} extrapolation and a CCSD(T)/def2-TZVP step provided the G4-T method of high accuracy and with just three fitted parameters. Using KS orbitals in MP2 leads to the G4(MP3|KS)-D method, which entirely eliminates the CCSD(T) step and has no steps costlier than scaled MP3; this shows a path forward to further improvements in double-hybrid density functional methods. G4-T-DLPNO, a variant in which post-MP2 corrections are evaluated at the DLPNO- CCSD(T) level, achieves nearly the accuracy of G4-T but is applicable to much larger systems.

Instruction-based multimodal image manipulation has recently made rapid progress. However, existing evaluation methods lack a systematic and human-aligned framework for assessing model performance on complex and creative editing tasks. To address this gap, we propose CREval, a fully automated question-answer (QA)-based evaluation pipeline that overcomes the incompleteness and poor interpretability of opaque Multimodal Large Language Models (MLLMs) scoring. Simultaneously, we introduce CREval-Bench, a comprehensive benchmark specifically designed for creative image manipulation under complex instructions. CREval-Bench covers three categories and nine creative dimensions, comprising over 800 editing samples and 13K evaluation queries. Leveraging this pipeline and benchmark, we systematically evaluate a diverse set of state-of-the-art open and closed-source models. The results reveal that while closed-source models generally outperform open-source ones on complex and creative tasks, all models still struggle to complete such edits effectively. In addition, user studies demonstrate strong consistency between CREval's automated metrics and human judgments. Therefore, CREval provides a reliable foundation for evaluating image editing models on complex and creative image manipulation tasks, and highlights key challenges and opportunities for future research.

Multimodal Large Language Models (MLLMs) have demonstrated remarkable reasoning capabilities across modalities such as images and text. However, tabular data, despite being a critical real-world modality, remains relatively underexplored in multimodal learning. In this paper, we focus on the task of Tabular-Vision Multi-Modal Understanding (TVMU) and identify three core challenges: (1) high structural variability and data incompleteness in tables, (2) implicit and complex feature dependencies, and (3) significant heterogeneity in problem-solving pipelines across downstream tasks. To address these issues, we propose Thinking with Tables (TWT). TWT employs a program-aided code-based neuro-symbolic reasoning mechanism that facilitates key operations, such as information extraction and element modeling, by interacting with external environments. We evaluate TWT on eight representative datasets. Experimental results demonstrate that TWT consistently outperforms existing baselines by an average of 10\% in accuracy, achieving performance comparable to, or even surpassing, proprietary commercial SOTA LLMs on TVMU tasks. Models and codes are available at https://github.com/kunyang-YU/Thinking-with-Tables

Generative novel view synthesis faces a fundamental dilemma: geometric priors provide spatial alignment but become sparse and inaccurate under view changes, while appearance priors offer visual fidelity but lack geometric correspondence. Existing methods either propagate geometric errors throughout generation or suffer from signal conflicts when fusing both statically. We introduce MoCam, which employs structured denoising dynamics to orchestrate a coordinated progression from geometry to appearance within the diffusion process.MoCam first leverages geometric priors in early stages to anchor coarse structures and tolerate their incompleteness, then switches to appearance priors in later stages to actively correct geometric errors and refine details. This design naturally unifies static and dynamic view synthesis by temporally decoupling geometric alignment and appearance refinement within the diffusion process.Experiments demonstrate that MoCam significantly outperforms prior methods, particularly when point clouds contain severe holes or distortions, achieving robust geometry-appearance disentanglement.

Large language models (LLMs) have demonstrated promising capabilities in generating Verilog code from natural language specifications. However, human-written specifications often contain semantic imperfections such as vagueness, contradictions, and incompleteness, which can significantly degrade the quality of hardware design generated by LLMs. In this paper, we present the first systematic study of imperfect specifications and propose an automated framework {VClare} to repair them to enhance the quality of resulting Verilog design. The proposed framework explores two complementary repair paradigms. The Spec-Level Repair conducts LLM-driven inconsistency mining directly on the specification texts, while the Sim-Level Repair employs simulation-based behavioral clustering with optional test-time inconsistency arbitration. In addition, we propose two new benchmark datasets with systematically injected specification defects. The first benchmark dataset is derived from the VerilogEval-human benchmark targeting single-module tasks, while the other benchmark dataset is derived from the ComplexVDB dataset and contains 53 multi-module tasks that reflect more realistic engineering scenarios. For single-module tasks, the {VClare} framework can repair the imperfections in the specifications effectively and thus enhance the pass rate of the generated Verilog design by 12.7\%, while for the multi-module tasks this enhancement can reach 13.7\%, demonstrating the capabilities of specification repair by {VClare} as well as further potential of LLMs in front-end hardware design.\footnote{The two benchmark datasets are released at https://anonymous.4open.science/r/VClare/.

Inspired by how humans communicate spatial information, language-guided geo-localization has gained significant traction for its intuitive and practical value. Despite this progress, most methods still rely on a static, one-shot retrieval paradigm, which fails to handle the ambiguity and incompleteness inherent in real-world natural language descriptions. We propose a paradigm shift to reasoning retrieval and introduce Dialogue Place Recognition (DlgPR), which casts localization as an interactive, dialogue-driven reasoning process. To support this new task, we present DlgQuest-Cities, the first large-scale dialogue-based benchmark for place recognition, and a unified reasoning framework that couples a cross-modal multi-level retriever with an intelligent questioner, DQ-pilot. DQ-pilot is trained in a curriculum: supervised fine-tuning on a curated DQ-cities-20k subset followed by reinforcement refinement on a harder DQ-cities-10k split via GRPO. Two task-aligned metrics guide learning: a Discriminative Difficulty Index (DDI) for curriculum sampling and a Positional Retrieval Gain (PRG) reward that directly measures retrieval improvement induced by a question. Experiments show this reasoning-based approach significantly outperforms baselines. The code and model are available at https://github.com/Graysonggg/DlgPR.

Large language models (LLMs) have significantly improved their ability to perform tasks in the field of code generation. However, there is still a gap between LLMs being capable coders and being top-tier software engineers. Based on the observation that top-level software engineers often ask clarifying questions to reduce ambiguity in both requirements and coding solutions, we argue that the same should be applied to LLMs for code generation tasks. In this work, we conducted an empirical study on the benchmark and analysis of the communication skills of LLMs for code generation. We define communication skills of LLMs as ``being able to ask clarifying questions when the description of the code generation problem has issues''. We created a new benchmark, HumanEvalComm, by modifying problem descriptions according to three issues: inconsistency, ambiguity, incompleteness. We defined new evaluation metrics such as Communication Rate and Good Question Rate, and then experimented on HumanEvalComm with different Code LLMs, and a new LLM agent approach, Okanagan, to identify and ask questions in ambiguous parts from code and descriptions for further refining the generated code. Finally, we discussed evaluation results by comparing Code LLMs and Okanagan with our findings.

Even if the depth maps captured by RGB-D sensors deployed in real environments are often characterized by large areas missing valid depth measurements, the vast majority of depth completion methods still assumes depth values covering all areas of the scene. To address this limitation, we introduce SteeredMarigold, a training-free, zero-shot depth completion method capable of producing metric dense depth, even for largely incomplete depth maps. SteeredMarigold achieves this by using the available sparse depth points as conditions to steer a denoising diffusion probabilistic model. Our method outperforms relevant top-performing methods on the NYUv2 dataset, in tests where no depth was provided for a large area, achieving state-of-art performance and exhibiting remarkable robustness against depth map incompleteness. Our code will be publicly available.

Triangle meshes play a crucial role in 3D applications for efficient manipulation and rendering. While auto-regressive methods generate structured meshes by predicting discrete vertex tokens, they are often constrained by limited face counts and mesh incompleteness. To address these challenges, we propose DeepMesh, a framework that optimizes mesh generation through two key innovations: (1) an efficient pre-training strategy incorporating a novel tokenization algorithm, along with improvements in data curation and processing, and (2) the introduction of Reinforcement Learning (RL) into 3D mesh generation to achieve human preference alignment via Direct Preference Optimization (DPO). We design a scoring standard that combines human evaluation with 3D metrics to collect preference pairs for DPO, ensuring both visual appeal and geometric accuracy. Conditioned on point clouds and images, DeepMesh generates meshes with intricate details and precise topology, outperforming state-of-the-art methods in both precision and quality. Project page: https://zhaorw02.github.io/DeepMesh/

The transcriptional response to genetic perturbation reveals fundamental insights into complex cellular systems. While current approaches have made progress in predicting genetic perturbation responses, they provide limited biological understanding and cannot systematically refine existing knowledge. Overcoming these limitations requires an end-to-end integration of data-driven learning and existing knowledge. However, this integration is challenging due to inconsistencies between data and knowledge bases, such as noise, misannotation, and incompleteness. To address this challenge, we propose ALIGNED (Adaptive aLignment for Inconsistent Genetic kNowledgE and Data), a neuro-symbolic framework based on the Abductive Learning (ABL) paradigm. This end-to-end framework aligns neural and symbolic components and performs systematic knowledge refinement. We introduce a balanced consistency metric to evaluate the predictions' consistency against both data and knowledge. Our results show that ALIGNED outperforms state-of-the-art methods by achieving the highest balanced consistency, while also re-discovering biologically meaningful knowledge. Our work advances beyond existing methods to enable both the transparency and the evolution of mechanistic biological understanding.

Existing multi-view 3D object reconstruction methods heavily rely on sufficient overlap between input views, where occlusions and sparse coverage in practice frequently yield severe reconstruction incompleteness. Recent advancements in diffusion-based 3D generative techniques offer the potential to address these limitations by leveraging learned generative priors to hallucinate invisible parts of objects, thereby generating plausible 3D structures. However, the stochastic nature of the inference process limits the accuracy and reliability of generation results, preventing existing reconstruction frameworks from integrating such 3D generative priors. In this work, we comprehensively analyze the reasons why diffusion-based 3D generative methods fail to achieve high consistency, including (a) the insufficiency in constructing and leveraging cross-view connections when extracting multi-view image features as conditions, and (b) the poor controllability of iterative denoising during local detail generation, which easily leads to plausible but inconsistent fine geometric and texture details with inputs. Accordingly, we propose ReconViaGen to innovatively integrate reconstruction priors into the generative framework and devise several strategies that effectively address these issues. Extensive experiments demonstrate that our ReconViaGen can reconstruct complete and accurate 3D models consistent with input views in both global structure and local details.Project page: https://jiahao620.github.io/reconviagen.

Understanding 3D scenes is pivotal for autonomous driving, robotics, and augmented reality. Recent semantic Gaussian Splatting approaches leverage large-scale 2D vision models to project 2D semantic features onto 3D scenes. However, they suffer from two major limitations: (1) insufficient contextual cues for individual masks during preprocessing and (2) inconsistencies and missing details when fusing multi-view features from these 2D models. In this paper, we introduce OpenInsGaussian, an Open-vocabulary Instance Gaussian segmentation framework with Context-aware Cross-view Fusion. Our method consists of two modules: Context-Aware Feature Extraction, which augments each mask with rich semantic context, and Attention-Driven Feature Aggregation, which selectively fuses multi-view features to mitigate alignment errors and incompleteness. Through extensive experiments on benchmark datasets, OpenInsGaussian achieves state-of-the-art results in open-vocabulary 3D Gaussian segmentation, outperforming existing baselines by a large margin. These findings underscore the robustness and generality of our proposed approach, marking a significant step forward in 3D scene understanding and its practical deployment across diverse real-world scenarios.

Multimodal large language models (MLLMs) hold great potential for medicine, as they inherit knowledge from LLM and allow multiple data modalities to be integrated, analysed and interpreted in natural language. However, the field of medical MLLMs is constrained by non-trivial challenges, notably the scarcity of high-quality training data and the frequent occurrence of missing data in the real-world clinical setting. Here, we propose a novel unified multimodal model, UniBrain, for brain magnetic resonance image (MRI) analysis. To address potential missing brain MRI modalities, we employ a unified training strategy to perform joint imaging modality imputation and brain image understanding. During training, an interleaved and description-enriched data flow is constructed to train the model in an autoregressive manner, enabling medical reasoning with generated multimodal data. A self-alignment strategy is introduced to leverage dense image embeddings to learn fine-grained anatomical features without requiring detailed image captions. Furthermore, we propose a dynamic hidden state mechanism to alleviate the exposure bias during long-context multimodal inference. Extensive experiments on multi-disease brain MRI dataset demonstrate that UniBrain achieves high performance for brain image imputation, understanding, and disease diagnosis under various extents of modality incompleteness.

Language models (LMs) often exhibit undesirable text generation behaviors, including generating false, toxic, or irrelevant outputs. Reinforcement learning from human feedback (RLHF) - where human preference judgments on LM outputs are transformed into a learning signal - has recently shown promise in addressing these issues. However, such holistic feedback conveys limited information on long text outputs; it does not indicate which aspects of the outputs influenced user preference; e.g., which parts contain what type(s) of errors. In this paper, we use fine-grained human feedback (e.g., which sentence is false, which sub-sentence is irrelevant) as an explicit training signal. We introduce Fine-Grained RLHF, a framework that enables training and learning from reward functions that are fine-grained in two respects: (1) density, providing a reward after every segment (e.g., a sentence) is generated; and (2) incorporating multiple reward models associated with different feedback types (e.g., factual incorrectness, irrelevance, and information incompleteness). We conduct experiments on detoxification and long-form question answering to illustrate how learning with such reward functions leads to improved performance, supported by both automatic and human evaluation. Additionally, we show that LM behaviors can be customized using different combinations of fine-grained reward models. We release all data, collected human feedback, and codes at https://FineGrainedRLHF.github.io.

Large reasoning models (e.g., R1, o3) have demonstrated remarkable mathematical problem-solving abilities. However, the high reported accuracy of these advanced models on popular datasets, reliance on purely numerical evaluation and potential benchmark leakage, often masks their true reasoning shortcomings. To address this, we propose leveraging the inherent rigor and methodological complexity of mathematical proofs as a diagnostic tool to expose these hidden failures. Specifically, we introduce the RFMDataset (Reveal Failure Modes), a collection of 200 diverse mathematical proof problems, and thoroughly evaluate advanced models' performance on it. Our in-depth analysis of their failures uncovers 10 fine-grained error types, which shows fundamental limitations in current large reasoning models: 1) large reasoning models grapple profoundly with mathematical proofs, with some generating entirely correct proofs for less than 20% of problems and failing even on basic ones; 2) models exhibit a diverse spectrum of reasoning failures, prominently demonstrating the lack of guarantees for the correctness and rigor of single-step reasoning; and 3) models show hallucination and incompleteness during the reasoning process. Our findings reveal that models' self-reflection is insufficient to resolve the current logical dilemmas, necessitating formalized and fine-grained logical training.