Repository-level code editing requires models to understand complex dependencies and execute precise multi-file modifications across a large codebase. While recent gains on SWE-bench rely heavily on complex agent scaffolding, it remains unclear how much of this capability can be internalised via high-quality training signals. To address this, we propose Clean Pull Request (Clean-PR), a mid-training paradigm that leverages real-world GitHub pull requests as a training signal for repository-level editing. We introduce a scalable pipeline that converts noisy pull request diffs into Search/Replace edit blocks through reconstruction and validation, resulting in the largest publicly available corpus of 2 million pull requests spanning 12 programming languages. Using this training signal, we perform a mid-training stage followed by an agentless-aligned supervised fine-tuning process with error-driven data augmentation. On SWE-bench, our model significantly outperforms the instruction-tuned baseline, achieving absolute improvements of 13.6% on SWE-bench Lite and 12.3% on SWE-bench Verified. These results demonstrate that repository-level code understanding and editing capabilities can be effectively internalised into model weights under a simplified, agentless protocol, without relying on heavy inference-time scaffolding.
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Probabilistic Methods · Gaussian Processes
We introduce a formal active learning methodology for guiding the placement of Lagrangian observers to infer time-dependent vector fields -- a key task in oceanography, marine science, and ocean engineering -- using a physics-informed spatio-temporal Gaussian process surrogate model. The majority of existing placement campaigns either follow standard `space-filling' designs or relatively ad-hoc expert opinions. A key challenge to applying principled active learning in this setting is that Lagrangian observers are continuously advected through the vector field, so they make measurements at different locations and times. It is, therefore, important to consider the likely future trajectories of placed observers to account for the utility of candidate placement locations. To this end, we present BALLAST: Bayesian Active Learning with Look-ahead Amendment for Sea-drifter Trajectories. We observe noticeable benefits of BALLAST-aided sequential observer placement strategies on both synthetic and high-fidelity ocean current models. In addition, we developed a novel GP inference method -- the Vanilla SPDE Exchange (VaSE) -- to boost the GP posterior sampling efficiency, which is also of independent interest.
Consider a market of competing model providers selling query access to models with varying costs and capabilities. Customers submit problem instances and are willing to pay up to a budget for a verifiable solution. An arbitrageur repeatedly queries cheaper models to undercut the price of a more capable model, thus creating a competitive offering with no model-development risk. In this work, we initiate the study of arbitrage in AI model markets, empirically demonstrating the viability of arbitrage and illustrating its economic consequences. We conduct an in-depth case study of SWE-bench GitHub issue resolution using two representative models, Qwen Coder 30B and Qwen Coder 480B. In this setting, simple arbitrage strategies generate net profit margins of up to 40%. Robust arbitrage strategies that generalize across different domains remain profitable. Distillation further creates strong arbitrage opportunities, even when model providers strategically restrict access to cheaper models. Multiple competing arbitrageurs drive down consumer prices, reducing the marginal revenue of model providers. At the same time, arbitrage reduces market segmentation and facilitates market entry for smaller model providers by enabling earlier revenue capture. Our results suggest that arbitrage is a powerful force in AI model markets with implications for model development, distillation, and deployment.
Reinforcement Learning · Multi-agent
We introduce Unsupervised Partner Design (UPD), a population-free multi-agent reinforcement learning method for robust ad-hoc teamwork. UPD generates training partners on-the-fly and selects them adaptively based on a learnability criterion, removing the need for pre-trained partner populations or manual parameter tuning. We show that this simple mechanism enables effective partner diversity and can be extended to joint partner-environment selection when a procedural level generator is available. Across Level-Based Foraging, Overcooked-AI, and the Overcooked Generalisation Challenge, UPD consistently outperforms both population-based and population-free baselines. In a human-AI user study, agents trained with UPD achieve higher returns and are rated as more adaptive, more human-like, and less frustrating than existing approaches.
Modern decision-making increasingly relies on contextual features (covariates) to improve optimization under uncertainty. In practice, however, such covariates are often only partially observed due to, e.g., data source heterogeneity or costly data collection. Nonetheless, most existing methods assume fully observed historical data and can become unreliable when this assumption is violated. We address this gap by proposing a distributionally robust optimization approach that exploits incomplete covariates to produce robust decisions without imputing a complete dataset. Our method builds ambiguity sets from the observed partial data and incorporates the general structure of the missingness mechanism, ensuring candidate distributions remain consistent with what is observed. Across settings with discrete or continuous covariates and outcomes, we derive tractable reformulations and establish finite-sample out-of-sample performance guarantees. Empirical results across a range of contextual decision-making tasks demonstrate that the proposed integrated approach consistently outperforms state-of-the-art baselines, including various impute-then-optimize pipelines, in both out-of-sample performance and reliability.
Optimization · Stochastic
Modern decision-making increasingly relies on contextual features (covariates) to improve optimization under uncertainty. In practice, however, such covariates are often only partially observed due to, e.g., data source heterogeneity or costly data collection. Nonetheless, most existing methods assume fully observed historical data and can become unreliable when this assumption is violated. We address this gap by proposing a distributionally robust optimization approach that exploits incomplete covariates to produce robust decisions without imputing a complete dataset. Our method builds ambiguity sets from the observed partial data and incorporates the general structure of the missingness mechanism, ensuring candidate distributions remain consistent with what is observed. Across settings with discrete or continuous covariates and outcomes, we derive tractable reformulations and establish finite-sample out-of-sample performance guarantees. Empirical results across a range of contextual decision-making tasks demonstrate that the proposed integrated approach consistently outperforms state-of-the-art baselines, including various impute-then-optimize pipelines, in both out-of-sample performance and reliability.
Large Language Models (LLMs) have shown to be vulnerable to backdoor attacks, yet we observe that many LLM backdoors do not survive when end users perform supervised fine-tuning (SFT). In this work, we provide a geometric explanation: by probing the backdoor objective under controlled weight perturbations, we find that conventional poisoning often drives the backdoor loss to a narrow and sharp basin; consequently, even modest parameter drift induced by downstream SFT can push the model out of the low-loss and high-ASR region, leading to rapid backdoor forgetting. Motivated by this insight, we propose BAD-BOOM, a resilient backdoor attack via broader smoothness minimization, which explicitly broadens and smooths the backdoor basin. BAD-BOOM extends sharpness-aware minimization with a Fisher-induced ellipsoidal constraint that allocates larger perturbation budgets to backdoor-sensitive parameters, encouraging solutions whose neighborhoods also maintain low backdoor loss. Across two threat settings (sentiment steering and targeted refusal), three attacks (AddSent, Sleeper, VPI), three open-source LLMs, and three trigger-free downstream SFT tasks (SST-2, GSM8K, instruction following), BAD-BOOM consistently preserves high ASR while maintaining competitive utility.
Applications · Language, Speech and Dialog
Large language models (LLMs) are trained on heterogeneous multilingual corpora, yet existing preference optimization methods often implicitly restrict each training question to a single response language or rely on a fixed dominant language for supervision. We propose language-routed preference optimization (LRPO), an online preference optimization framework that treats language as a selectable variable rather than a fixed input constraint. LRPO elicits multilingual rollouts for each training question and integrates their relative quality into preference-based policy updates, increasing the diversity and informativeness of training signals under the fixed rollout budget. To adaptively determine which languages to explore, we introduce a trainable language router formulated as a multi-armed bandit, balancing exploration of underutilized languages with exploitation of more informative ones. Extensive experiments show that LRPO consistently improves multilingual performance, demonstrating that adaptive language routing enables effective cross-lingual knowledge exploitation for training.
General Machine Learning · Evaluation
Despite groundbreaking advancements in generative models during the last decade, concerns about their lack of fairness, reinforcing societal inequalities and harming marginalized groups, remain under-addressed and difficult to act upon. This position paper argues that fairness failures in generative models, albeit driven by multiple factors, are ultimately stemming from an evaluation problem: fairness findings are rarely comparable across papers or actionable for deployment decisions. This paper diagnoses recurring empirical and conceptual failure modes in current practice and motivates a shift from ad-hoc bias checks to standardized, generative-specific evaluation. We propose Fairness Cards as a minimal reporting artifact that makes evaluation choices explicit (prompt families, counterfactual protocols, metrics, and refusal handling) enabling reproducibility, comparability, and accountability. We conclude with additional recommendations towards a paradigm shift in evaluation standards.
Multivariate time series (MTS) forecasting critically depends on modeling inter-variable dependencies, yet existing paradigms face a trade-off: channel-isolation strategies can suffer from information fragmentation in strongly coupled systems, whereas channel-interaction methods often introduce spurious interactions among irrelevant variables. To address this challenge, we propose Coherent Resonance Interaction with Spectral Priors (Crisp). Crisp adopts the principle that effective information exchange should occur only between variables with compatible oscillatory patterns. Concretely, we derive spectral priors in the frequency domain to construct dynamic resonance topologies. With a differentiable, adaptive, and strictly sparse blocking mechanism, Crisp forces attention weights for spectrally inconsistent neighbors to be exactly zero. In addition, we introduce a spectral-gated feature filtering module to refine variable representations using intrinsic spectral characteristics. Extensive experiments demonstrate that Crisp significantly outperforms 20+ baselines. Our code is available at Anonymous GitHub.
Reinforcement Learning · Batch/Offline
Generative Flow Networks (GFlowNets) have recently been used to improve diversity and mitigate popularity bias in LLM-based recommender systems, yet most objectives are developed under online-style assumptions. In offline LLM-based recommendation, learning is constrained to a fixed logged dataset, yielding partial support over token transitions on the dataset-induced token-prefix DAG. Naively applying Sub-Trajectory Balance (SubTB) becomes non-identifiable and can arbitrarily allocate probability mass to unsupported regions. We formalize this failure and identify three sources of non-identifiability that induce distributional shift between the dataset-implied policy and the learned policy: (i) flow overestimation, (ii) forward mass leakage, and (iii) backward compensation. To address it, we propose CFlower, which introduces a conservative SubTB objective that explicitly penalizes unsupported forward flow mass, and combines it with dataset-constrained policy learning with on-policy sampling on the dataset-induced DAG for efficient training under offline constraints. Experiments on three Amazon recommendation datasets show that CFlower improves distributional matching and delivers a stronger accuracy--exposure trade-off than prior GFlowNet and SFT baselines, while serving as a more reliable reference policy for downstream RL fine-tuning.
Applications · Chemistry, Physics, and Earth Sciences
Computational identification of lipid-binding proteins is critical for both fundamental research and therapeutic development. Existing models are typically trained in a fully supervised manner, treating unlabeled samples as negatives. However, missing evidence does not imply non-binding, leading to systematic false negatives. Pocket-level lipid-binding prediction also remains underexplored compared to residue- or sequence-level approaches. To bridge these gaps, we present **LipoPU**, a pocket-centric predictor that formulates lipid-binding learning under a ranking-based positive-unlabeled objective, and supports both binary lipid-binding detection and multi-label lipid category prediction. LipoPU learns an attention-based pocket representation that is robust to ambiguous pocket definitions while providing residue-level interpretability. Experiments show consistent gains over supervised baselines and prior pocket-level work, and a structural case study recovers a literature-supported allosteric lipid-binding pocket while highlighting biologically informative residues.
General Machine Learning · Supervised Learning
Long-tailed recognition fundamentally suffers from optimizer blindness where the optimization process mistakenly conflates the magnitude of gradient accumulation with the scarcity of semantic information. Existing strategies relying on static frequency-based priors fail to correct this bias and result in state blindness regarding supervision and micro-level blindness regarding parameter updates. To address these limitations, we propose the AES framework to establish a dynamic and state-aware correction system across the entire learning lifecycle. We specifically introduce Adaptive Residual Supervision loss to act as a real-time reality check for supervision completeness via precision shielding. We also propose Entropy-aware PCGrad to resolve parameter-level conflicts by quantifying task specificity through gradient entropy. Additionally, we devise Sample-level Conflict Arbitrated Fusion to serve as a dynamic inference arbiter that routes predictions based on instance difficulty. Extensive experiments on CIFAR-100-LT, ImageNet-LT, and iNaturalist 2018 demonstrate that our method consistently achieves state-of-the-art performance by effectively balancing head-class stability and tail-class discrimination. Code is available at Supplement.
General Machine Learning · Methodology
Traditional evaluations measure a learning algorithm's final performance on an i.i.d. test set, reducing learning to a single aggregate score. This approach obscures a fundamental question: to what extent does learning from a specific example generalize to others? Such per-sample generalization—akin to learning by analogy in human cognition—captures how far the knowledge extracted from one example can transfer, yet remains invisible to standard benchmarks. We introduce the Generalization Spectrum, an evaluation framework designed to expose this hidden dimension. For each training example, we construct a controlled suite of test variants arranged by increasing transfer distance—from exact recall to implementation transfer across languages, context transfer under complete narrative re-framing, category-matched in-domain problems, and an unpaired baseline. By tracking performance across these distances, we reveal not just whether an algorithm learns, but how far that learning extends. We instantiate this framework on competitive programming, using a synthetic generation pipeline seeded with recent problems to mitigate contamination. Across ICL, SFT, RFT, and RL, we find two levers that shape generalization radius: \textbf{(i) the learning algorithm}---how to learn from a fixed set of training instances---where RL yields markedly stronger near-transfer than SFT/RFT under matched memorization and learns more transferable structure; and \textbf{(ii) the learning content}---what extra signal to provide or reformat given the same seeds---where abstract ICL demonstrations and on-policy SFT targets yield more reliable transfer than concrete code and off-policy supervision.
Optimization · Convex
We consider minimizing an objective function subject to constraints defined by the intersection of lower-level sets of convex functions. We study two cases: (i) strongly convex and Lipschitz-smooth objective function and (ii) convex but possibly nonsmooth objective function. To deal with the constraints that are not easy to project on, we use a randomized feasibility algorithm with Polyak steps and a random number of sampled constraints per iteration, while taking (sub)gradient steps to minimize the objective function. For case (i), we prove linear convergence in expectation of the objective function values to any prescribed tolerance using an adaptive stepsize. For case (ii), we develop a fully problem parameter-free and adaptive stepsize scheme that yields an $O(1/\sqrt{T})$ worst-case rate in expectation. The infeasibility of the iterates decreases geometrically with the number of feasibility updates almost surely, while for the averaged iterates, we establish an expected lower bound on the function values relative to the optimal value that depends on the distribution for the random number of sampled constraints. For certain choices of sample-size growth, optimal rates are achieved. Finally, simulations on a Quadratically Constrained Quadratic Programming (QCQP) problem and Support Vector Machines (SVM) demonstrate the computational efficiency of our algorithm compared to other state-of-the-art methods.
General Machine Learning · Everything Else
Adaptive Neuro-Fuzzy Inference System (ANFIS) was designed to combine the learning capabilities of neural network with the reasoning transparency of fuzzy logic. However, conventional ANFIS architectures suffer from structural complexity, where the product-based inference mechanism causes an exponential explosion of rules in high-dimensional spaces. We herein propose the \textbf{K}olmogorov-\textbf{A}rnold **N**euro-**F**uzzy **I**nference **S**ystem (KANFIS), a compact neuro-symbolic architecture that unifies fuzzy reasoning with additive function decomposition. KANFIS employs an additive aggregation mechanism, under which both model parameters and rule complexity scale linearly with input dimensionality rather than exponentially. Furthermore, KANFIS is compatible with both Type-1 (T1) and Interval Type-2 (IT2) fuzzy logic systems, enabling explicit modeling of uncertainty and ambiguity in fuzzy representations. By using sparse masking mechanisms, KANFIS generates compact and structured rule sets, resulting in an intrinsically interpretable model with clear rule semantics and transparent inference processes. Empirical results demonstrate that KANFIS achieves competitive performance against representative neural and neuro-fuzzy baselines.
Applications · Chemistry, Physics, and Earth Sciences
Identifying molecular structures from spectral data is essential for early-stage chemical analysis, yet it remains a difficult task due to the imbalance in functional group distributions. Current methods often overfit to prevalent groups while neglecting underrepresented ones, failing to capture key dependencies between functional groups. This highlights the need for a unified approach that addresses both data imbalance and structural constraints. In this work, we present SymSpectra, a Symmetric Conditional Information Bottleneck (SCIB) framework designed to seamlessly integrate multi-modal Spectra features. Our model employs the SCIB framework to fuse multi-modal spectroscopic data into a unified representation, effectively preserving discriminative signals while mitigating redundancy. To enhance robustness against data imbalance, we incorporate conditional mutual information into the training objective, increasing the model’s sensitivity to rare functional groups and challenging molecular cases. Additionally, a specialized module captures the dependencies among functional groups, improving both prediction accuracy and chemically meaningful interpretability. Experiments on multimodal spectral datasets demonstrate that SymSpectra significantly outperforms state-of-the-art methods, achieving an F1-score of 0.970 in substructure classification. More importantly, SymSpectra consistently outperforms baselines under various imbalanced scenarios, exhibiting superior robustness and generalizability, which may help advance the automation of chemical discovery. Our code can be found at https://anonymous.4open.science/r/SymSpectra-0017.
General Machine Learning · Hardware and Software
Efficiently processing long sequences with Transformer models usually requires splitting the computations across accelerators via context parallelism. The dominant approaches in this family of methods, such as Ring Attention or DeepSpeed Ulysses, enable scaling over the context dimension but do not focus on memory efficiency, which limits the sequence lengths they can support. More advanced techniques, such as Fully Pipelined Distributed Transformer or activation offloading, can further extend the possible context length at the cost of training throughput. In this paper, we present UPipe, a simple yet effective context parallelism technique that performs fine-grained chunking at the attention head level. This technique significantly reduces the activation memory usage of self-attention, breaking the activation memory barrier and unlocking much longer context lengths. Our approach lowers the peak activation memory usage by as much as **82.5%** for 70B Transformers, while matching previous context parallelism techniques in terms of training speed. UPipe can support maximum context lengths of up to 5M tokens for training 8B models on a single 8xH100 node, improving upon prior methods by **25%**.
Applications · Chemistry, Physics, and Earth Sciences
In the AI4Chemistry scenario, utilizing heterogeneous data at different fidelity levels is a common and core issue. High-fidelity data is accurate but scarce, while low-fidelity data is abundant but biased. Traditional multi-fidelity methods typically identify cross-fidelity biases based on paired samples under different fidelity labels. However, due to the mismatch in dataset input distribution and the complexity of the biases themselves, these methods are difficult to implement in real-world scientific environments. To address this, we propose a trusted information subset decomposition framework that can efficiently utilize multi-fidelity data without requiring paired samples. Multi-fidelity label supervision is decomposed into three complementary subsets: a trusted information subset based on the absolute value of high-fidelity labels; a trusted subset that captures the reliability of the high-fidelity and medium-fidelity label intervals through adaptive constraints; and an ordered trusted subset representing the numerical relationships within the same fidelity level. These subsets are then integrated into a unified end-to-end model, enabling the reasonable utilization of medium- and low-fidelity information. Extensive experiments on various molecular and material property benchmarks demonstrate that our method consistently outperforms state-of-the-art multifidelity and singlefidelity baseline methods, and exhibits good robustness under real-world unpaired multifidelity conditions.
Applications · Computer Vision
Multimodal Diffusion Transformers (MM-DiTs) have achieved remarkable progress in text-to-image generation, yet they frequently suffer from concept omission, where specified objects or attributes fail to emerge in the generated image. By performing linear probing on text tokens, we demonstrate that text embeddings can distinguish a characteristic `omission signal' representing the absence of target concepts. Leveraging this insight, we propose Omission Signal Intervention (OSI), which amplifies the omission signal to actively catalyze the generation of missing concepts. Comprehensive experiments on FLUX.1-Dev and SD3.5-Medium demonstrate that OSI significantly alleviates concept omission even in extreme scenarios.