Daily Papers

Protein language models are trained primarily with masked language modeling (MLM), which predicts amino-acid identities at masked positions. We ask whether latent-space prediction can complement these token-level objectives under matched wall-clock budget. Across pretrained and random-init protein sequence encoders at 35--150M parameters, we find that the best protein-JEPA design is not all-position latent prediction but a variant: predicting latent targets only at masked positions, and retaining the MLM cross-entropy. We call this recipe masked-position MLM+JEPA. On a 16-task downstream suite (15 frozen linear probes plus SCOPe-40 zero-shot fold retrieval), under matched wall-clock budgets, this recipe wins more tasks than it loses against MLM-only continuation: 10 wins / 3 losses / 3 ties (hereafter W/L/T) on pretrained ESM2-35M, 11/2/3 on ESM2-150M while results in pretraining from scratch are mixed (6/8/2). Gains are seen for multiple models on 11 of 16 tasks, including stability, etaβeta-lactamase fitness, variant effect, intrinsic disorder, remote homology, enzyme classification, and SCOPe-40 fold retrieval. Tasks with more losses than wins are Fluorescence (TAPE) and Peptide-HLA Binding. All-position MLM+JEPA matches MLM-only overall but does not reproduce the masked-position gains. JEPA-only (no MLM) collapses in nearly every experiment. We conclude that JEPA, when combined with MLM, is competitive and can outperform pure MLM in pretraining and continued training, even under matched wall-clock budgets.

Scientific and engineering progress is fundamentally a long-horizon iterative process: proposing changes, running experiments, measuring outcomes, and continuously refining artifacts. Yet existing benchmarks for frontier models primarily evaluate either single-turn responses or short-horizon agent trajectories, failing to capture the challenges of sustained iterative improvement over extended time horizons. To address this gap, we introduce AutoLab, a new benchmark for ultra long-horizon closed-loop optimization. AutoLab consists of 36 realistic, expert-curated tasks spanning four diverse domains: system optimization, puzzle & challenge, model development, and CUDA kernel optimization. Each task begins with a correct but deliberately suboptimal baseline and challenges agents to improve it within a strict wall-clock budget. Evaluating 17 state-of-the-art models reveals the dominant predictor of success is not the quality of an agent's initial attempt, but its persistence in repeatedly benchmarking, editing, and incorporating empirical feedback. While claude-opus-4.6 exhibits strong long-horizon optimization capabilities, most frontier models, including several proprietary ones, either terminate prematurely or exhaust their budgets with minimal progress. These results underscore the importance of time awareness and persistent iteration in autonomous agents. We open-source the full benchmark, evaluation harness, and task artifacts, to accelerate research toward truly capable long-horizon agents.

We present AutoResearch-RL, a framework in which a reinforcement learning agent conducts open-ended neural architecture and hyperparameter research without human supervision, running perpetually until a termination oracle signals convergence or resource exhaustion. At each step the agent proposes a code modification to a target training script, executes it under a fixed wall clock time budget, observes a scalar reward derived from validation bits-per-byte (val-bpb), and updates its policy via Proximal Policy Optimisation (PPO). The key design insight is the separation of three concerns: (i) a frozen environment (data pipeline, evaluation protocol, and constants) that guarantees fair cross-experiment comparison; (ii) a mutable target file (train.py) that represents the agent's editable state; and (iii) a meta-learner (the RL agent itself) that accumulates a growing trajectory of experiment outcomes and uses them to inform subsequent proposals. We formalise this as a Markov Decision Process, derive convergence guarantees under mild assumptions, and demonstrate empirically on a single GPU nanochat pretraining benchmark that AutoResearch-RL discovers configurations that match or exceed hand-tuned baselines after approximately 300 overnight iterations, with no human in the loop.

A primary cost driver for training large models is wall-clock training time. We show that popular time estimates based on FLOPs are poor estimates, and construct a more accurate proxy based on memory copies. We show that with some simple accounting, we can estimate the training speed of a transformer model from its hyperparameters. Combined with a scaling law curve like Chinchilla, this lets us estimate the final loss of the model. We fit our estimate to real data with a linear regression, and apply the result to rewrite Chinchilla in terms of a model's estimated training time as opposed to the amount of training data. This gives an expression for the loss in terms of the model's hyperparameters alone. We show that this expression is accurate across a wide range of model hyperparameter values, enabling us to analytically make architectural decisions and train models more efficiently.

Reinforcement learning with verifiable rewards (RLVR) generates hundreds of thousands of tokens per training step, with rollout generation dominating the computational cost. The overall token budget can be controlled along two main dimensions: (i) deciding which prompts to allocate rollouts to, and (ii) deciding how long each rollout should be. Prior work has generally controlled only one of these dimensions at a time. We show that jointly tuning both decisions under a shared compute budget improves both reasoning quality and wall-clock training time. We instantiate this view as DUal-controlled tokEn allocaTion (DUET), a computationally efficient layer over GRPO that uses a lightweight pre-rollout surrogate of prompt informativeness to set how many rollouts each prompt receives, and a marker-gated abort rule with importance reweighting to set when to stop them. On Qwen3-1.7B trained on MATH, DUET outperforms full-budget GRPO and the other three budget-aware baseline methods. DUET's advantage further generalizes to other benchmarks across math and coding, and is on par with the best baseline on the scientific Q\&A domain, while also achieving a 1.62times wall-clock speedup. More notably, using only 50\% of the token budget, DUET still outperforms all baseline methods at their full budget, achieving an even higher 2.51times speedup over full-budget GRPO. We verify the high performance of DUET on other backbone LLMs, including Qwen3-4B and Llama-3.2-3B-Instruct. Notably, the gap between DUET and the strongest baseline widens as the budget tightens, contrary to the usual pattern in which efficient methods trade off quality as compute decreases. More broadly, these results suggest that DUET budget-aware control strategies are valuable not only for accelerating training, but also for improving the quality of the learning signal.

Assigning one of K options to each of N groups under a total cost budget is a recurring problem in efficient AI, including mixed-precision quantization, non-uniform pruning, and expert selection. The objective, typically model loss, depends jointly on all assignments and does not decompose across groups, preventing combinatorial solvers from directly optimizing the true objective and forcing reliance on proxy formulations. Methods such as evolutionary search evaluate the actual loss but lack gradient information, while penalty-based approaches enforce the budget only approximately and often require extensive hyperparameter tuning. We present a new approach by showing that, under softmax relaxation, the budget constraint defines a smooth Riemannian manifold in logit space with unusually simple geometry. The normal vector admits a closed-form expression, shifting logits along the cost vector changes expected cost monotonically, and vector transport reduces to a single inner product. Building on these properties, we propose Riemannian Constrained Optimization (RCO), which augments a standard Adam step with tangent projection, binary-search retraction, and momentum transport. Combined with Gumbel straight-through estimation and budget-constrained dynamic programming for discrete feasibility, RCO enables first-order optimization of the actual loss under exact budget enforcement without introducing constraint-specific hyperparameters. Across both synthetic benchmarks and realistic LLM compression settings, RCO matches or exceeds state-of-the-art methods while often requiring substantially less wall-clock time. Source code is available at https://github.com/IST-DASLab/RCO.

In unsupervised learning, collecting more data is not always a costly process unlike the training. For example, it is not hard to enlarge the 40GB WebText used for training GPT-2 by modifying its sampling methodology considering how many webpages there are in the Internet. On the other hand, given that training on this dataset already costs tens of thousands of dollars, training on a larger dataset naively is not cost-wise feasible. In this paper, we suggest to train on a larger dataset for only one epoch unlike the current practice, in which the unsupervised models are trained for from tens to hundreds of epochs. Furthermore, we suggest to adjust the model size and the number of iterations to be performed appropriately. We show that the performance of Transformer language model becomes dramatically improved in this way, especially if the original number of epochs is greater. For example, by replacing the training for 10 epochs with the one epoch training, this translates to 1.9-3.3x speedup in wall-clock time in our settings and more if the original number of epochs is greater. Under one epoch training, no overfitting occurs, and regularization method does nothing but slows down the training. Also, the curve of test loss over iterations follows power-law extensively. We compare the wall-clock time of the training of models with different parameter budget under one epoch training, and we show that size/iteration adjustment based on our proposed heuristics leads to 1-2.7x speedup in our cases. With the two methods combined, we achieve 3.3-5.1x speedup. Finally, we speculate various implications of one epoch training and size/iteration adjustment. In particular, based on our analysis we believe that we can reduce the cost to train the state-of-the-art models as BERT and GPT-2 dramatically, maybe even by the factor of 10.

Reinforcement learning (RL) plays a central role in large language model (LLM) post-training. Among existing approaches, Group Relative Policy Optimization (GRPO) is widely used, especially for RL with verifiable rewards (RLVR) fine-tuning. In GRPO, each query prompts the LLM to generate a group of rollouts with a fixed group size N. When all rollouts in a group share the same outcome, either all correct or all incorrect, the group-normalized advantages become zero, yielding no gradient signal and wasting fine-tuning compute. We introduce Adaptive Efficient Rollout Optimization (AERO), an enhancement of GRPO. AERO uses an adaptive rollout strategy, applies selective rejection to strategically prune rollouts, and maintains a Bayesian posterior to prevent zero-advantage dead zones. Across three model configurations (Qwen2.5-Math-1.5B, Qwen2.5-7B, and Qwen2.5-7B-Instruct), AERO improves compute efficiency without sacrificing performance. Under the same total rollout budget, AERO reduces total training compute by about 48% while shortening wall-clock time per step by about 45% on average. Despite the substantial reduction in compute, AERO matches or improves Pass@8 and Avg@8 over GRPO, demonstrating a practical, scalable, and compute-efficient strategy for RL-based LLM alignment.

As large language models (LLMs) increasingly tackle complex reasoning tasks, test-time scaling has become critical for enhancing capabilities. However, in agentic scenarios with frequent tool calls, the traditional generation-length-based definition breaks down: tool latency decouples inference time from generation length. We propose Timely Machine, redefining test-time as wall-clock time, where models dynamically adjust strategies based on time budgets. We introduce Timely-Eval, a benchmark spanning high-frequency tool calls, low-frequency tool calls, and time-constrained reasoning. By varying tool latency, we find smaller models excel with fast feedback through more interactions, while larger models dominate high-latency settings via superior interaction quality. Moreover, existing models fail to adapt reasoning to time budgets. We propose Timely-RL to address this gap. After cold-start supervised fine-tuning, we use reinforcement learning to enhance temporal planning. Timely-RL improves time budget awareness and consistently boosts performance across Timely-Eval. We hope our work offers a new perspective on test-time scaling for the agentic era.

The costly self-attention layers in modern Transformers require memory and compute quadratic in sequence length. Existing approximation methods usually underperform and fail to obtain significant speedups in practice. Here we present SwitchHead - a novel method that reduces both compute and memory requirements and achieves wall-clock speedup, while matching the language modeling performance of baseline Transformers with the same parameter budget. SwitchHead uses Mixture-of-Experts (MoE) layers for the value and output projections and requires 4 to 8 times fewer attention matrices than standard Transformers. Our novel attention can also be combined with MoE MLP layers, resulting in an efficient fully-MoE "SwitchAll" Transformer model. Our code is public.

Web-scale search systems learn an encoder to embed a given query which is then hooked into an approximate nearest neighbor search (ANNS) pipeline to retrieve similar data points. To accurately capture tail queries and data points, learned representations typically are rigid, high-dimensional vectors that are generally used as-is in the entire ANNS pipeline and can lead to computationally expensive retrieval. In this paper, we argue that instead of rigid representations, different stages of ANNS can leverage adaptive representations of varying capacities to achieve significantly better accuracy-compute trade-offs, i.e., stages of ANNS that can get away with more approximate computation should use a lower-capacity representation of the same data point. To this end, we introduce AdANNS, a novel ANNS design framework that explicitly leverages the flexibility of Matryoshka Representations. We demonstrate state-of-the-art accuracy-compute trade-offs using novel AdANNS-based key ANNS building blocks like search data structures (AdANNS-IVF) and quantization (AdANNS-OPQ). For example on ImageNet retrieval, AdANNS-IVF is up to 1.5% more accurate than the rigid representations-based IVF at the same compute budget; and matches accuracy while being up to 90x faster in wall-clock time. For Natural Questions, 32-byte AdANNS-OPQ matches the accuracy of the 64-byte OPQ baseline constructed using rigid representations -- same accuracy at half the cost! We further show that the gains from AdANNS translate to modern-day composite ANNS indices that combine search structures and quantization. Finally, we demonstrate that AdANNS can enable inference-time adaptivity for compute-aware search on ANNS indices built non-adaptively on matryoshka representations. Code is open-sourced at https://github.com/RAIVNLab/AdANNS.