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Aug 13

MoE Parallel Folding: Heterogeneous Parallelism Mappings for Efficient Large-Scale MoE Model Training with Megatron Core

Mixture of Experts (MoE) models enhance neural network scalability by dynamically selecting relevant experts per input token, enabling larger model sizes while maintaining manageable computation costs. However, efficient training of large-scale MoE models across thousands of GPUs presents significant challenges due to limitations in existing parallelism strategies. We introduce an end-to-end training framework for large-scale MoE models that utilizes five-dimensional hybrid parallelism: Tensor Parallelism, Expert Parallelism, Context Parallelism, Data Parallelism, and Pipeline Parallelism. Central to our approach is MoE Parallel Folding, a novel strategy that decouples the parallelization of attention and MoE layers in Transformer models, allowing each layer type to adopt optimal parallel configurations. Additionally, we develop a flexible token-level dispatcher that supports both token-dropping and token-dropless MoE training across all five dimensions of parallelism. This dispatcher accommodates dynamic tensor shapes and coordinates different parallelism schemes for Attention and MoE layers, facilitating complex parallelism implementations. Our experiments demonstrate significant improvements in training efficiency and scalability. We achieve up to 49.3% Model Flops Utilization (MFU) for the Mixtral 8x22B model and 39.0% MFU for the Qwen2-57B-A14B model on H100 GPUs, outperforming existing methods. The framework scales efficiently up to 1,024 GPUs and maintains high performance with sequence lengths up to 128K tokens, validating its effectiveness for large-scale MoE model training. The code is available in Megatron-Core.

  • 18 authors
·
Apr 21, 2025

Not All Tokens Need 40 Steps: Heterogeneous Step Allocation in Diffusion Transformers for Efficient Video Generation

Diffusion Transformers (DiTs) have achieved state-of-the-art video generation quality, but they incur immense computational cost because standard inference applies the same number of denoising steps uniformly to every token in the sequence. It is well known that human vision ignores vast amounts of redundant motion. Why, then, do our densest models treat every spatiotemporal token with equal priority? In this paper, we introduce Heterogeneous Step Allocation (HSA), a training-free inference algorithm that assigns varying step budgets to different spatiotemporal tokens based on their velocity dynamics. To resolve the resulting sequence-length mismatch without sacrificing global context, HSA introduces a KV-cache synchronization mechanism that allows active tokens to attend to the full sequence while entirely bypassing inactive tokens. Furthermore, we derive a cached Euler update that advances the latent states of skipped tokens in a single operation without additional model evaluations. We evaluate HSA on the Wan-2 and LTX-2 models for both text-to-video (T2V) and image-to-video (I2V) generation. Our results demonstrate that HSA significantly outperforms previous state-of-the-art caching methods and the vanilla Flow Matching baseline, especially at aggressive acceleration regimes (e.g., 50% and 25% runtimes). Crucially, HSA achieves a superior quality-runtime Pareto frontier without the need for expensive offline profiling, robustly preserving structural integrity and generation quality even under tight computational budgets. Project page: https://ernestchu.github.io/hsa

  • 2 authors
·
May 6

From Uniform to Heterogeneous: Tailoring Policy Optimization to Every Token's Nature

Reinforcement Learning has emerged as the fundamental technique for enhancing reasoning in LLMs. However, existing algorithms apply uniform optimization to all tokens, ignoring their different roles in reasoning process. To address this limitation, we introduce Heterogeneous Adaptive Policy Optimization (HAPO), a comprehensive token-aware algorithm that dynamically adapts optimization based on token entropy. For rollout sampling, we propose Adaptive Temperature Sampling, which adjusts sampling temperature in real time, promoting exploration at high-entropy tokens while preserving coherence at low-entropy ones. For advantage calculation, we introduce Token Level Group Average that normalizes advantages at token level, jointly accounting for sequence-length as in token-mean loss while preserving non-biased treatment. We then develop Differential Advantage Redistribution that leverages entropy and importance ratios to modulate rewards-adjusting updates for tokens with clear signals. For clipping loss, we design Asymmetric Adaptive Clipping, allowing aggressive probability reduction for noisy low-entropy tokens while enabling exploration for high-entropy tokens. Through systematic investigation between entropy and training dynamics, we embedded token-level treatment into every stages to achieve fine-grained control. Extensive experiments demonstrate that HAPO consistently outperforms DAPO across multiple model scales. Our code can be found in https://github.com/starriver030515/HAPO.

  • 7 authors
·
Sep 20, 2025 2

Data-Centric and Heterogeneity-Adaptive Sequence Parallelism for Efficient LLM Training

Extending the context length (i.e., the maximum supported sequence length) of LLMs is of paramount significance. To facilitate long context training of LLMs, sequence parallelism has emerged as an essential technique, which scatters each input sequence across multiple devices and necessitates communication to process the sequence. In essence, existing sequence parallelism methods assume homogeneous sequence lengths (i.e., all input sequences are equal in length) and therefore leverages a single, static scattering strategy for all input sequences. However, in reality, the sequence lengths in LLM training corpora exhibit substantial variability, often following a long-tail distribution, which leads to workload heterogeneity. In this paper, we show that employing a single, static strategy results in inefficiency and resource under-utilization, highlighting the need for adaptive approaches to handle the heterogeneous workloads across sequences. To address this, we propose a heterogeneity-adaptive sequence parallelism method. For each training step, our approach captures the variability in sequence lengths and assigns the optimal combination of scattering strategies based on workload characteristics. We model this problem as a linear programming optimization and design an efficient and effective solver to find the optimal solution. Furthermore, we implement our method in a high-performance system that supports adaptive parallelization in distributed LLM training. Experimental results demonstrate that our system outperforms state-of-the-art training frameworks by up to 1.98x.

  • 10 authors
·
Dec 2, 2024

Revisiting Data Challenges of Computational Pathology: A Pack-based Multiple Instance Learning Framework

Computational pathology (CPath) digitizes pathology slides into whole slide images (WSIs), enabling analysis for critical healthcare tasks such as cancer diagnosis and prognosis. However, WSIs possess extremely long sequence lengths (up to 200K), significant length variations (from 200 to 200K), and limited supervision. These extreme variations in sequence length lead to high data heterogeneity and redundancy. Conventional methods often compromise on training efficiency and optimization to preserve such heterogeneity under limited supervision. To comprehensively address these challenges, we propose a pack-based MIL framework. It packs multiple sampled, variable-length feature sequences into fixed-length ones, enabling batched training while preserving data heterogeneity. Moreover, we introduce a residual branch that composes discarded features from multiple slides into a hyperslide which is trained with tailored labels. It offers multi-slide supervision while mitigating feature loss from sampling. Meanwhile, an attention-driven downsampler is introduced to compress features in both branches to reduce redundancy. By alleviating these challenges, our approach achieves an accuracy improvement of up to 8% while using only 12% of the training time in the PANDA(UNI). Extensive experiments demonstrate that focusing data challenges in CPath holds significant potential in the era of foundation models. The code is https://github.com/FangHeng/PackMIL

  • 5 authors
·
Sep 25, 2025

Dystruct: Dynamically Structured Diffusion Language Model Decoding via Bayesian Inference

Diffusion language models (DLMs) have recently emerged as a promising alternative to autoregressive models, primarily due to their ability to enable parallel decoding. Despite this advantage, most existing DLMs rely on a fixed generation length specified prior to decoding, which restricts their flexibility in real-world applications. While a few recent works attempt to support flexible-length generation, they typically suffer from notable limitations: some require costly retraining to accommodate variable-length outputs, while others depend solely on local confidence signals during decoding. Such local criteria fail to capture the evolving structure of the sequence, often resulting in suboptimal generation quality. In this paper, we propose a training-free, Bayesian structured decoding framework that formulates flexible-length generation as a dynamic structural inference problem. Our approach formulates flexible-length generation as a dynamic structural inference problem, jointly computing the expansion length, the block boundaries, and the decoding schedule. At each window expansion step, the method integrates local uncertainty with structural signals via a unified mechanism that supports dynamic structured generation, including both flexible block expansion and block organization, while maintaining coherence. Extensive experiments across multiple benchmarks demonstrate that our approach significantly improves generation quality and flexibility over existing fixed-length and flexible-length baselines. These results highlight the advantage of Bayesian structured decoding for diffusion language model, providing a principled and efficient solution for structured text generation.

  • 4 authors
·
May 9 1

CASTILLO: Characterizing Response Length Distributions of Large Language Models

Efficiently managing compute resources for Large Language Model (LLM) inference remains challenging due to the inherently stochastic and variable lengths of autoregressive text generation. Accurately estimating response lengths in advance enables proactive resource allocation, yet existing approaches either bias text generation towards certain lengths or rely on assumptions that ignore model- and prompt-specific variability. We introduce CASTILLO, a dataset characterizing response length distributions across 13 widely-used open-source LLMs evaluated on seven distinct instruction-following corpora. For each langleprompt, modelrangle sample pair, we generate 10 independent completions using fixed decoding hyper-parameters, record the token length of each response, and publish summary statistics (mean, std-dev, percentiles), along with the shortest and longest completions, and the exact generation settings. Our analysis reveals significant inter- and intra-model variability in response lengths (even under identical generation settings), as well as model-specific behaviors and occurrences of partial text degeneration in only subsets of responses. CASTILLO enables the development of predictive models for proactive scheduling and provides a systematic framework for analyzing model-specific generation behaviors. We publicly release the dataset and code to foster research at the intersection of generative language modeling and systems.

  • 3 authors
·
May 22, 2025

Dataset Decomposition: Faster LLM Training with Variable Sequence Length Curriculum

Large language models (LLMs) are commonly trained on datasets consisting of fixed-length token sequences. These datasets are created by randomly concatenating documents of various lengths and then chunking them into sequences of a predetermined target length. However, this method of concatenation can lead to cross-document attention within a sequence, which is neither a desirable learning signal nor computationally efficient. Additionally, training on long sequences becomes computationally prohibitive due to the quadratic cost of attention. In this study, we introduce dataset decomposition, a novel variable sequence length training technique, to tackle these challenges. We decompose a dataset into a union of buckets, each containing sequences of the same size extracted from a unique document. During training, we use variable sequence length and batch size, sampling simultaneously from all buckets with a curriculum. In contrast to the concat-and-chunk baseline, which incurs a fixed attention cost at every step of training, our proposed method incurs a penalty proportional to the actual document lengths at each step, resulting in significant savings in training time. We train an 8k context-length 1B model at the same cost as a 2k context-length model trained with the baseline approach. Experiments on a web-scale corpus demonstrate that our approach significantly enhances performance on standard language evaluations and long-context benchmarks, reaching target accuracy 3x faster compared to the baseline. Our method not only enables efficient pretraining on long sequences but also scales effectively with dataset size. Lastly, we shed light on a critical yet less studied aspect of training large language models: the distribution and curriculum of sequence lengths, which results in a non-negligible difference in performance.

  • 7 authors
·
May 21, 2024

Kwai Summary Attention Technical Report

Long-context ability, has become one of the most important iteration direction of next-generation Large Language Models, particularly in semantic understanding/reasoning, code agentic intelligence and recommendation system. However, the standard softmax attention exhibits quadratic time complexity with respect to sequence length. As the sequence length increases, this incurs substantial overhead in long-context settings, leading the training and inference costs of extremely long sequences deteriorate rapidly. Existing solutions mitigate this issue through two technique routings: i) Reducing the KV cache per layer, such as from the head-level compression GQA, and the embedding dimension-level compression MLA, but the KV cache remains linearly dependent on the sequence length at a 1:1 ratio. ii) Interleaving with KV Cache friendly architecture, such as local attention SWA, linear kernel GDN, but often involve trade-offs among KV Cache and long-context modeling effectiveness. Besides the two technique routings, we argue that there exists an intermediate path not well explored: {Maintaining a linear relationship between the KV cache and sequence length, but performing semantic-level compression through a specific ratio k}. This O(n/k) path does not pursue a ``minimum KV cache'', but rather trades acceptable memory costs for complete, referential, and interpretable retention of long distant dependency. Motivated by this, we propose Kwai Summary Attention (KSA), a novel attention mechanism that reduces sequence modeling cost by compressing historical contexts into learnable summary tokens.

  • 38 authors
·
Apr 26

Length Value Model: Scalable Value Pretraining for Token-Level Length Modeling

Token serves as the fundamental unit of computation in modern autoregressive models, and generation length directly influences both inference cost and reasoning performance. Despite its importance, existing approaches lack fine-grained length modeling, operating primarily at the coarse-grained sequence level. We introduce the Length Value Model (LenVM), a token-level framework that models the remaining generation length. By formulating length modeling as a value estimation problem and assigning a constant negative reward to each generated token, LenVM predicts a bounded, discounted return that serves as a monotone proxy for the remaining generation horizon. This formulation yields supervision that is annotation-free, dense, unbiased, and scalable. Experiments on LLMs and VLMs demonstrate LenVM provides a highly effective signal at inference time. On the LIFEBench exact length matching task, applying LenVM to a 7B model improves the length score from 30.9 to 64.8, significantly outperforming frontier closed-source models. Furthermore, LenVM enables continuous control over the trade off between performance and efficiency. On GSM8K at a budget of 200 tokens, LenVM maintains 63% accuracy compared to 6 percent for token budget baseline. It also accurately predicts total generation length from the prompt boundary. Finally, LenVM's token-level values offer an interpretable view of generation dynamics, revealing how specific tokens shift reasoning toward shorter or longer regimes. Results demonstrate that LenVM supports a broad range of applications and token length can be effectively modeled as a token-level value signal, highlighting the potential of LenVM as a general framework for length modeling and as a length-specific value signal that could support future RL training. Code is available at https://github.com/eric-ai-lab/Length-Value-Model.

ucsbai UCSB AI Group
·
Apr 28 2

Beyond Fixed: Variable-Length Denoising for Diffusion Large Language Models

Diffusion Large Language Models (DLLMs) are emerging as a powerful alternative to the dominant Autoregressive Large Language Models, offering efficient parallel generation and capable global context modeling. However, the practical application of DLLMs is hindered by a critical architectural constraint: the need for a statically predefined generation length. This static length allocation leads to a problematic trade-off: insufficient lengths cripple performance on complex tasks, while excessive lengths incur significant computational overhead and sometimes result in performance degradation. While the inference framework is rigid, we observe that the model itself possesses internal signals that correlate with the optimal response length for a given task. To bridge this gap, we leverage these latent signals and introduce DAEDAL, a novel training-free denoising strategy that enables Dynamic Adaptive Length Expansion for Diffusion Large Language Models. DAEDAL operates in two phases: 1) Before the denoising process, DAEDAL starts from a short initial length and iteratively expands it to a coarse task-appropriate length, guided by a sequence completion metric. 2) During the denoising process, DAEDAL dynamically intervenes by pinpointing and expanding insufficient generation regions through mask token insertion, ensuring the final output is fully developed. Extensive experiments on DLLMs demonstrate that DAEDAL achieves performance comparable, and in some cases superior, to meticulously tuned fixed-length baselines, while simultaneously enhancing computational efficiency by achieving a higher effective token ratio. By resolving the static length constraint, DAEDAL unlocks new potential for DLLMs, bridging a critical gap with their Autoregressive counterparts and paving the way for more efficient and capable generation.

  • 6 authors
·
Aug 1, 2025 2

Order Matters: Sequence to sequence for sets

Sequences have become first class citizens in supervised learning thanks to the resurgence of recurrent neural networks. Many complex tasks that require mapping from or to a sequence of observations can now be formulated with the sequence-to-sequence (seq2seq) framework which employs the chain rule to efficiently represent the joint probability of sequences. In many cases, however, variable sized inputs and/or outputs might not be naturally expressed as sequences. For instance, it is not clear how to input a set of numbers into a model where the task is to sort them; similarly, we do not know how to organize outputs when they correspond to random variables and the task is to model their unknown joint probability. In this paper, we first show using various examples that the order in which we organize input and/or output data matters significantly when learning an underlying model. We then discuss an extension of the seq2seq framework that goes beyond sequences and handles input sets in a principled way. In addition, we propose a loss which, by searching over possible orders during training, deals with the lack of structure of output sets. We show empirical evidence of our claims regarding ordering, and on the modifications to the seq2seq framework on benchmark language modeling and parsing tasks, as well as two artificial tasks -- sorting numbers and estimating the joint probability of unknown graphical models.

  • 3 authors
·
Nov 19, 2015

LM-Infinite: Simple On-the-Fly Length Generalization for Large Language Models

In recent years, there have been remarkable advancements in the performance of Transformer-based Large Language Models (LLMs) across various domains. As these LLMs are deployed for increasingly complex tasks, they often face the needs to conduct longer reasoning processes or understanding larger contexts. In these situations, the length generalization failure of LLMs on long sequences become more prominent. Most pre-training schemes truncate training sequences to a fixed length (such as 2048 for LLaMa). LLMs often struggle to generate fluent texts, let alone carry out downstream tasks, after longer contexts, even with relative positional encoding which is designed to cope with this problem. Common solutions such as finetuning on longer corpora often involves daunting hardware and time costs and requires careful training process design. To more efficiently leverage the generation capacity of existing LLMs, we theoretically and empirically investigate the main out-of-distribution (OOD) factors contributing to this problem. Inspired by this diagnosis, we propose a simple yet effective solution for on-the-fly length generalization, LM-Infinite, which involves only a Lambda-shaped attention mask and a distance limit while requiring no parameter updates or learning. We find it applicable to a variety of LLMs using relative-position encoding methods. LM-Infinite is computational efficient with O(n) time and space, and demonstrates consistent fluency and generation quality to as long as 32k tokens on ArXiv and OpenWebText2 datasets, with 2.72x decoding speedup. On downstream task such as passkey retrieval, it continues to work on inputs much longer than training lengths where vanilla models fail immediately.

  • 6 authors
·
Aug 30, 2023 4

Diverse Beam Search: Decoding Diverse Solutions from Neural Sequence Models

Neural sequence models are widely used to model time-series data. Equally ubiquitous is the usage of beam search (BS) as an approximate inference algorithm to decode output sequences from these models. BS explores the search space in a greedy left-right fashion retaining only the top-B candidates - resulting in sequences that differ only slightly from each other. Producing lists of nearly identical sequences is not only computationally wasteful but also typically fails to capture the inherent ambiguity of complex AI tasks. To overcome this problem, we propose Diverse Beam Search (DBS), an alternative to BS that decodes a list of diverse outputs by optimizing for a diversity-augmented objective. We observe that our method finds better top-1 solutions by controlling for the exploration and exploitation of the search space - implying that DBS is a better search algorithm. Moreover, these gains are achieved with minimal computational or memory over- head as compared to beam search. To demonstrate the broad applicability of our method, we present results on image captioning, machine translation and visual question generation using both standard quantitative metrics and qualitative human studies. Further, we study the role of diversity for image-grounded language generation tasks as the complexity of the image changes. We observe that our method consistently outperforms BS and previously proposed techniques for diverse decoding from neural sequence models.

  • 7 authors
·
Oct 7, 2016

LISTER: Neighbor Decoding for Length-Insensitive Scene Text Recognition

The diversity in length constitutes a significant characteristic of text. Due to the long-tail distribution of text lengths, most existing methods for scene text recognition (STR) only work well on short or seen-length text, lacking the capability of recognizing longer text or performing length extrapolation. This is a crucial issue, since the lengths of the text to be recognized are usually not given in advance in real-world applications, but it has not been adequately investigated in previous works. Therefore, we propose in this paper a method called Length-Insensitive Scene TExt Recognizer (LISTER), which remedies the limitation regarding the robustness to various text lengths. Specifically, a Neighbor Decoder is proposed to obtain accurate character attention maps with the assistance of a novel neighbor matrix regardless of the text lengths. Besides, a Feature Enhancement Module is devised to model the long-range dependency with low computation cost, which is able to perform iterations with the neighbor decoder to enhance the feature map progressively. To the best of our knowledge, we are the first to achieve effective length-insensitive scene text recognition. Extensive experiments demonstrate that the proposed LISTER algorithm exhibits obvious superiority on long text recognition and the ability for length extrapolation, while comparing favourably with the previous state-of-the-art methods on standard benchmarks for STR (mainly short text).

  • 5 authors
·
Aug 24, 2023

Zeppelin: Balancing Variable-length Workloads in Data Parallel Large Model Training

Training large language models (LLMs) with increasingly long and varying sequence lengths introduces severe load imbalance challenges in large-scale data-parallel training. Recent frameworks attempt to mitigate these issues through data reorganization or hybrid parallel strategies. However, they often overlook how computational and communication costs scale with sequence length, resulting in suboptimal performance. We identify three critical challenges: (1) varying computation-to-communication ratios across sequences of different lengths in distributed attention, (2) mismatch between static NIC-GPU affinity and dynamic parallel workloads, and (3) distinct optimal partitioning strategies required for quadratic attention versus linear components. To address these challenges, we present Zeppelin, a novel training system that integrates three key techniques: (1) a hierarchical sequence partitioning method for the attention module that reduces communication overhead and balances computation, supported by an efficient attention engine that applies divergent parallel strategies; (2) a routing layer that orchestrates inter-node transfers to fully utilize NIC bandwidth; and (3) a remapping layer that transforms sequence layouts between attention and linear modules, ensuring high computational efficiency across both. Comprehensive evaluations across diverse configurations show that Zeppelin delivers an average 2.80x speedup over state-of-the-art methods.

  • 10 authors
·
Sep 26, 2025

Efficient Long Context Fine-tuning with Chunk Flow

Long context fine-tuning of large language models(LLMs) involves training on datasets that are predominantly composed of short sequences and a small proportion of longer sequences. However, existing approaches overlook this long-tail distribution and employ training strategies designed specifically for long sequences. Moreover, these approaches also fail to address the challenges posed by variable sequence lengths during distributed training, such as load imbalance in data parallelism and severe pipeline bubbles in pipeline parallelism. These issues lead to suboptimal training performance and poor GPU resource utilization. To tackle these problems, we propose a chunk-centric training method named ChunkFlow. ChunkFlow reorganizes input sequences into uniformly sized chunks by consolidating short sequences and splitting longer ones. This approach achieves optimal computational efficiency and balance among training inputs. Additionally, ChunkFlow incorporates a state-aware chunk scheduling mechanism to ensure that the peak memory usage during training is primarily determined by the chunk size rather than the maximum sequence length in the dataset. Integrating this scheduling mechanism with existing pipeline scheduling algorithms further enhances the performance of distributed training. Experimental results demonstrate that, compared with Megatron-LM, ChunkFlow can be up to 4.53x faster in the long context fine-tuning of LLMs. Furthermore, we believe that ChunkFlow serves as an effective solution for a broader range of scenarios, such as long context continual pre-training, where datasets contain variable-length sequences.

  • 13 authors
·
Mar 4, 2025

Requential Coding: Pushing the Limits of Model Compression with Self-Generated Training Data

Compression is fundamental to intelligence. A model that can represent its training data as a short code has discovered regularities that enable generalization. Large neural networks may learn functions far simpler than their parameter counts suggest, but it is challenging to construct codes that realize this simplicity. Parameter-based methods such as quantization produce code lengths that scale with model size, insensitive to how much information the parameters store. Prequential coding bypasses this issue by compressing the training trajectory, but codes the exact data sequence regardless of how much the model learns, yielding large codes when the data has high entropy. We introduce requential coding, where a teacher model selects training samples drawn from the student's own distribution. The student's code records only these selections, which cost bits only where teacher and student disagree. The resulting code length is independent of parameter count and data entropy, and often orders of magnitude shorter than the prequential counterpart, with an advantage that grows with scale. This compression sheds light on phenomena inaccessible to prior compressors. Holding loss fixed, larger models and ensembles compress to much smaller sizes despite more parameters. Plugged into a PAC-Bayes bound, the requential code yields state-of-the-art generalization guarantees for billion-parameter LLMs, outperforming bounds built on aggressive post-training quantization even granted zero error. The bound tightens with scale in the compute-optimal regime, as models become increasingly compressible relative to dataset size. The same code predicts that models gradually overfit when trained for multiple epochs. It also isolates the learnable information in a dataset from its unpredictable, random content, revealing that lower-entropy text holds far more learnable structure than higher-entropy image data.

  • 5 authors
·
Jul 12

p-adic Bi-Filtrations for Topological Machine Learning on Genomic Sequences

We introduce pVR, a topological machine learning framework for alignment-free genomic sequence classification that combines p-adic numbers with topological data analysis. Each DNA sequence is encoded along two complementary axes: a p-adic distance on k-mer prefixes, which captures hierarchical positional structure, and a compositional L_1 distance on k-mer frequencies, which captures local sequence content. The two distances jointly parameterise a bi-filtered Vietoris--Rips complex, and per-sequence topological summaries from this bi-filtration serve as features for standard machine learning classifiers. We establish theoretical guarantees for the construction: stability under metric perturbations and invariance to the choice of prime, alongside a result that explains why a single p-adic axis is topologically uninformative and why the bi-filtration recovers nontrivial homology. On twelve genomic benchmarks (28 to 500 sequences, 3 to 7 classes), pVR outperforms four established alignment-free baselines on three of six low-sample datasets, with gains of up to 21 percentage points; it underperforms only on a SARS-CoV-2 variant benchmark whose point-mutation divergence violates the hierarchical assumption, and all methods saturate in the large-sample regime. pVR also outperforms zero-shot frozen embeddings from the 500M-parameter Nucleotide Transformer v2 by 6.7 to 11.4 percentage points on three low-sample benchmarks. The pVR codebase is publicly available at https://github.com/MAHI-Group/pVR.

  • 2 authors
·
Jun 4

M4LE: A Multi-Ability Multi-Range Multi-Task Multi-Domain Long-Context Evaluation Benchmark for Large Language Models

Managing long sequences has become an important and necessary feature for large language models (LLMs). However, it is still an open question of how to comprehensively and systematically evaluate the long-sequence capability of LLMs. One of the reasons is that conventional and widely-used benchmarks mainly consist of short sequences. In this paper, we propose M4LE, a Multi-ability, Multi-range, Multi-task, Multi-domain benchmark for Long-context Evaluation. M4LE is based on a diverse NLP task pool comprising 36 NLP datasets, 11 task types and 12 domains. To alleviate the scarcity of tasks with naturally long sequences and incorporate multiple-ability assessment, we propose an automatic approach (but with negligible human annotations) to convert short-sequence tasks into a unified long-sequence scenario where LLMs have to identify single or multiple relevant spans in long contexts based on explicit or semantic hints. Specifically, the scenario includes five different types of abilities: (1) explicit single-span; (2) semantic single-span; (3) explicit multiple-span; (4) semantic multiple-span; and (5) global context understanding. The resulting samples in M4LE are evenly distributed from 1k to 8k input length. We conducted a systematic evaluation on 11 well-established LLMs, especially those optimized for long-sequence inputs. Our results reveal that: 1) Current LLMs struggle to understand long context, particularly when tasks require multiple-span attention. 2) Semantic retrieval task is more difficult for competent LLMs. 3) Models fine-tuned on longer text with position interpolation have comparable performance to those using Neural Tangent Kernel (NTK) aware scaling methods without fine-tuning. We make our benchmark publicly available to encourage future research in this challenging area.

  • 8 authors
·
Oct 29, 2023

Test-Time Training Done Right

Test-Time Training (TTT) models context dependencies by adapting part of the model's weights (referred to as fast weights) during inference. This fast weight, akin to recurrent states in RNNs, stores temporary memories of past tokens in the current sequence. Existing TTT methods struggled to show effectiveness in handling long-context data, due to their inefficiency on modern GPUs. The TTT layers in many of these approaches operate with extremely low FLOPs utilization (often <5%) because they deliberately apply small online minibatch sizes (e.g., updating fast weights every 16 or 64 tokens). Moreover, a small minibatch implies fine-grained block-wise causal dependencies in the data, unsuitable for data beyond 1D ordered sequences, like sets or N-dimensional grids such as images or videos. In contrast, we pursue the opposite direction by using an extremely large chunk update, ranging from 2K to 1M tokens across tasks of varying modalities, which we refer to as Large Chunk Test-Time Training (LaCT). It improves hardware utilization by orders of magnitude, and more importantly, facilitates scaling of nonlinear state size (up to 40% of model parameters), hence substantially improving state capacity, all without requiring cumbersome and error-prone kernel implementations. It also allows easy integration of sophisticated optimizers, e.g. Muon for online updates. We validate our approach across diverse modalities and tasks, including novel view synthesis with image set, language models, and auto-regressive video diffusion. Our approach can scale up to 14B-parameter AR video diffusion model on sequences up to 56K tokens. In our longest sequence experiment, we perform novel view synthesis with 1 million context length. We hope this work will inspire and accelerate new research in the field of long-context modeling and test-time training. Website: https://tianyuanzhang.com/projects/ttt-done-right

  • 9 authors
·
May 29, 2025

Giraffe: Adventures in Expanding Context Lengths in LLMs

Modern large language models (LLMs) that rely on attention mechanisms are typically trained with fixed context lengths which enforce upper limits on the length of input sequences that they can handle at evaluation time. To use these models on sequences longer than the train-time context length, one might employ techniques from the growing family of context length extrapolation methods -- most of which focus on modifying the system of positional encodings used in the attention mechanism to indicate where tokens or activations are located in the input sequence. We conduct a wide survey of existing methods of context length extrapolation on a base LLaMA or LLaMA 2 model, and introduce some of our own design as well -- in particular, a new truncation strategy for modifying the basis for the position encoding. We test these methods using three new evaluation tasks (FreeFormQA, AlteredNumericQA, and LongChat-Lines) as well as perplexity, which we find to be less fine-grained as a measure of long context performance of LLMs. We release the three tasks publicly as datasets on HuggingFace. We discover that linear scaling is the best method for extending context length, and show that further gains can be achieved by using longer scales at evaluation time. We also discover promising extrapolation capabilities in the truncated basis. To support further research in this area, we release three new 13B parameter long-context models which we call Giraffe: 4k and 16k context models trained from base LLaMA-13B, and a 32k context model trained from base LLaMA2-13B. We also release the code to replicate our results.

  • 6 authors
·
Aug 21, 2023

HiP Attention: Sparse Sub-Quadratic Attention with Hierarchical Attention Pruning

In modern large language models (LLMs), increasing sequence lengths is a crucial challenge for enhancing their comprehension and coherence in handling complex tasks such as multi-modal question answering. However, handling long context sequences with LLMs is prohibitively costly due to the conventional attention mechanism's quadratic time and space complexity, and the context window size is limited by the GPU memory. Although recent works have proposed linear and sparse attention mechanisms to address this issue, their real-world applicability is often limited by the need to re-train pre-trained models. In response, we propose a novel approach, Hierarchically Pruned Attention (HiP), which simultaneously reduces the training and inference time complexity from O(T^2) to O(T log T) and the space complexity from O(T^2) to O(T). To this end, we devise a dynamic sparse attention mechanism that generates an attention mask through a novel tree-search-like algorithm for a given query on the fly. HiP is training-free as it only utilizes the pre-trained attention scores to spot the positions of the top-k most significant elements for each query. Moreover, it ensures that no token is overlooked, unlike the sliding window-based sub-quadratic attention methods, such as StreamingLLM. Extensive experiments on diverse real-world benchmarks demonstrate that HiP significantly reduces prompt (i.e., prefill) and decoding latency and memory usage while maintaining high generation performance with little or no degradation. As HiP allows pretrained LLMs to scale to millions of tokens on commodity GPUs with no additional engineering due to its easy plug-and-play deployment, we believe that our work will have a large practical impact, opening up the possibility to many long-context LLM applications previously infeasible.

  • 7 authors
·
Jun 14, 2024

DEI: Diversity in Evolutionary Inference for Quality-Diversity Search

We present DEI: Diversity in Evolutionary Inference, a distributed Quality-Diversity (QD) search framework that assigns heterogeneous large language models (LLMs) as mutation operators across peer nodes communicating with non-blocking collective operations. Unlike homogeneous parallel search, which replicates a single model's inductive biases across all workers, DEI treats each LLM's distinct creative prior as a complementary source of behavioral novelty. Extending the Digital Red Queen framework with DEI, nodes share local optimal solutions at the end of each round to seed the next round's population. This creates cross-model adversarial pressure that drives robustness beyond intra-model self-play. Evaluated on the Core War domain, a competitive programming benchmark in which Redcode warrior programs battle inside a simulated machine, a four-node heterogeneous ensemble (GPT-5.4-mini, Claude Sonnet 4.6, GPT-5.2, and Claude Haiku 4.5) achieves 124 percent higher merged-archive QD-Score (45.90 vs. 20.46) and 28 percent higher coverage (80.6 percent vs. 63.0 percent of cells) than a single-node baseline at equal total LLM-call budget. The heterogeneous ensemble also outperforms an equally-budgeted homogeneous ensemble on QD-Score, coverage, and held-out solution generality across all four model families. These results provide the first empirical evidence that model diversity, not merely parallelism, is the key driver of gain in distributed LLM-based QD search.

Gensyn Gensyn
·
May 25 2

Arctic Long Sequence Training: Scalable And Efficient Training For Multi-Million Token Sequences

Long sequences are critical for applications like RAG, long document summarization, multi-modality, etc., and modern LLMs, like Llama 4 Scout, support max sequence length of up to 10 million tokens. However, outside of enterprise labs, long sequence training is challenging for the AI community with limited system support in the open-source space. Out-of-box, even on a modern NVIDIA H100 80GB GPU cluster, training Llama 8B model with sequence over 32K runs out of memory on a basic Hugging Face (HF) model due to two reasons: i) LLM training workloads are not optimized to fully leverage a single GPU memory, ii) existing solutions for leveraging multiple GPU memory are not easily available to HF models, making long sequence training inaccessible. We address this with Arctic Long Sequence Training (ALST). It offers a combination of attention-agnostic single GPU and multi-GPU memory optimizations, that enables it to support out-of-box training of multi-million sequence length for a wide variety of HF models. ALST supports training Meta's Llama 8B model with 500K sequence length on a single H100 GPU, 3.7M on a single 8xH100 GPU node, and over 15M on a 4 node cluster, an increase of over 400x compared to the 32K baseline for the latter. ALST is fully compatible with HF models and open-sourced via Deepspeed https://www.deepspeed.ai/tutorials/ulysses-alst-sequence-pallellism/ and Arctic Training https://github.com/snowflakedb/ArcticTraining/blob/main/projects/sequence-parallelism/README.md.

  • 8 authors
·
Jun 16, 2025

InfLLM: Unveiling the Intrinsic Capacity of LLMs for Understanding Extremely Long Sequences with Training-Free Memory

Large language models (LLMs) have emerged as a cornerstone in real-world applications with lengthy streaming inputs, such as LLM-driven agents. However, existing LLMs, pre-trained on sequences with restricted maximum length, cannot generalize to longer sequences due to the out-of-domain and distraction issues. To alleviate these issues, existing efforts employ sliding attention windows and discard distant tokens to achieve the processing of extremely long sequences. Unfortunately, these approaches inevitably fail to capture long-distance dependencies within sequences to deeply understand semantics. This paper introduces a training-free memory-based method, InfLLM, to unveil the intrinsic ability of LLMs to process streaming long sequences. Specifically, InfLLM stores distant contexts into additional memory units and employs an efficient mechanism to lookup token-relevant units for attention computation. Thereby, InfLLM allows LLMs to efficiently process long sequences while maintaining the ability to capture long-distance dependencies. Without any training, InfLLM enables LLMs pre-trained on sequences of a few thousand tokens to achieve superior performance than competitive baselines continually training these LLMs on long sequences. Even when the sequence length is scaled to 1,024K, InfLLM still effectively captures long-distance dependencies.

  • 9 authors
·
Feb 7, 2024 3

XL3M: A Training-free Framework for LLM Length Extension Based on Segment-wise Inference

Length generalization failure problem, namely the large language model (LLM) fails to generalize to texts longer than its maximum training length, greatly restricts the application of LLM in the scenarios with streaming long inputs. To address this problem, the existing methods either require substantial costs or introduce precision loss. In this paper, we empirically find that the accuracy of the LLM's prediction is highly correlated to its certainty. Based on this, we propose an efficient training free framework, named XL3M (it means extra-long large language model), which enables the LLMs trained on short sequences to reason extremely long sequence without any further training or fine-tuning. Under the XL3M framework, the input context will be firstly decomposed into multiple short sub-contexts, where each sub-context contains an independent segment and a common ``question'' which is a few tokens from the end of the original context. Then XL3M gives a method to measure the relevance between each segment and the ``question'', and constructs a concise key context by splicing all the relevant segments in chronological order. The key context is further used instead of the original context to complete the inference task. Evaluations on comprehensive benchmarks show the superiority of XL3M. Using our framework, a Llama2-7B model is able to reason 20M long sequences on an 8-card Huawei Ascend 910B NPU machine with 64GB memory per card.

  • 10 authors
·
May 27, 2024 2

Category-Aware Semantic Caching for Heterogeneous LLM Workloads

LLM serving systems process heterogeneous query workloads where different categories exhibit different characteristics. Code queries cluster densely in embedding space while conversational queries distribute sparsely. Content staleness varies from minutes (stock data) to months (code patterns). Query repetition patterns range from power-law (code) to uniform (conversation), producing long tail cache hit rate distributions: high-repetition categories achieve 40-60% hit rates while low-repetition or volatile categories achieve 5-15% hit rates. Vector databases must exclude the long tail because remote search costs (30ms) require 15--20% hit rates to break even, leaving 20-30% of production traffic uncached. Uniform cache policies compound this problem: fixed thresholds cause false positives in dense spaces and miss valid paraphrases in sparse spaces; fixed TTLs waste memory or serve stale data. This paper presents category-aware semantic caching where similarity thresholds, TTLs, and quotas vary by query category. We present a hybrid architecture separating in-memory HNSW search from external document storage, reducing miss cost from 30ms to 2ms. This reduction makes low-hit-rate categories economically viable (break-even at 3-5% versus 15-20%), enabling cache coverage across the entire workload distribution. Adaptive load-based policies extend this framework to respond to downstream model load, dynamically adjusting thresholds and TTLs to reduce traffic to overloaded models by 9-17% in theoretical projections.

  • 6 authors
·
Oct 29, 2025

ByteTransformer: A High-Performance Transformer Boosted for Variable-Length Inputs

Transformers have become keystone models in natural language processing over the past decade. They have achieved great popularity in deep learning applications, but the increasing sizes of the parameter spaces required by transformer models generate a commensurate need to accelerate performance. Natural language processing problems are also routinely faced with variable-length sequences, as word counts commonly vary among sentences. Existing deep learning frameworks pad variable-length sequences to a maximal length, which adds significant memory and computational overhead. In this paper, we present ByteTransformer, a high-performance transformer boosted for variable-length inputs. We propose a padding-free algorithm that liberates the entire transformer from redundant computations on zero padded tokens. In addition to algorithmic-level optimization, we provide architecture-aware optimizations for transformer functional modules, especially the performance-critical algorithm Multi-Head Attention (MHA). Experimental results on an NVIDIA A100 GPU with variable-length sequence inputs validate that our fused MHA outperforms PyTorch by 6.13x. The end-to-end performance of ByteTransformer for a forward BERT transformer surpasses state-of-the-art transformer frameworks, such as PyTorch JIT, TensorFlow XLA, Tencent TurboTransformer, Microsoft DeepSpeed-Inference and NVIDIA FasterTransformer, by 87\%, 131\%, 138\%, 74\% and 55\%, respectively. We also demonstrate the general applicability of our optimization methods to other BERT-like models, including ALBERT, DistilBERT, and DeBERTa.

  • 8 authors
·
Oct 6, 2022

Streaming Structured Inference with Flash-SemiCRF

Semi-Markov Conditional Random Fields (semi-CRFs) assign labels to segments of a sequence rather than to individual positions, enabling exact inference over segment-level features and principled uncertainty estimates at their boundaries. However, existing implementations must materialize a large edge potential tensor whose size grows with sequence length, maximum segment length, and label count, becoming prohibitive for speech-scale state spaces and intractable at genomic scales where sequences can exceed 100,000 positions. This memory bottleneck has limited the adoption of exact segment-level inference for long sequences and large label sets. We identify that the core inefficiency is materializing edge potentials that can instead be evaluated on-the-fly from a compact prefix-sum array, and make several improvements. First, replacing the stored edge tensor with prefix-sum lookup reduces the memory footprint by a factor proportional to the product of segment length and label count. Second, a streaming forward-backward pass with checkpoint-boundary normalization keeps working memory sublinear in sequence length while preserving exact gradients. Third, zero-centered cumulative scores control numerical drift and induce an adaptive duration prior under label imbalance. We integrate these ideas into Flash-SemiCRF, a fused Triton kernel that enables exact semi-CRF inference on previously intractable problem sizes. Available at https://github.com/biobenkj/flash-semicrf.

  • 5 authors
·
Apr 19 2

How Private Are DNA Embeddings? Inverting Foundation Model Representations of Genomic Sequences

DNA foundation models have become transformative tools in bioinformatics and healthcare applications. Trained on vast genomic datasets, these models can be used to generate sequence embeddings, dense vector representations that capture complex genomic information. These embeddings are increasingly being shared via Embeddings-as-a-Service (EaaS) frameworks to facilitate downstream tasks, while supposedly protecting the privacy of the underlying raw sequences. However, as this practice becomes more prevalent, the security of these representations is being called into question. This study evaluates the resilience of DNA foundation models to model inversion attacks, whereby adversaries attempt to reconstruct sensitive training data from model outputs. In our study, the model's output for reconstructing the DNA sequence is a zero-shot embedding, which is then fed to a decoder. We evaluated the privacy of three DNA foundation models: DNABERT-2, Evo 2, and Nucleotide Transformer v2 (NTv2). Our results show that per-token embeddings allow near-perfect sequence reconstruction across all models. For mean-pooled embeddings, reconstruction quality degrades as sequence length increases, though it remains substantially above random baselines. Evo 2 and NTv2 prove to be most vulnerable, especially for shorter sequences with reconstruction similarities > 90%, while DNABERT-2's BPE tokenization provides the greatest resilience. We found that the correlation between embedding similarity and sequence similarity was a key predictor of reconstruction success. Our findings emphasize the urgent need for privacy-aware design in genomic foundation models prior to their widespread deployment in EaaS settings. Training code, model weights and evaluation pipeline are released on: https://github.com/not-a-feature/DNA-Embedding-Inversion.

  • 3 authors
·
Mar 6

Zonkey: A Hierarchical Diffusion Language Model with Differentiable Tokenization and Probabilistic Attention

Large language models (LLMs) have revolutionized natural language processing, yet they remain constrained by fixed, non-differentiable tokenizers like Byte Pair Encoding (BPE), which hinder end-to-end optimization and adaptability to noisy or domain-specific data. We introduce Zonkey, a hierarchical diffusion model that addresses these limitations through a fully trainable pipeline from raw characters to document-level representations. At its core is a differentiable tokenizer (Segment Splitter) that learns probabilistic beginning-of-sequence (BOS) decisions, enabling adaptive splits that emerge as linguistically meaningful (e.g., word boundaries at spaces, sentence starts at periods) without explicit supervision. This differentiability is enabled by our novel Probabilistic Attention mechanism, which incorporates position-specific existence probabilities to simulate soft masking over theoretically infinite sequences while preserving gradients. Sequences decay probabilistically rather than relying on end-of-sequence tokens, supporting variable-length outputs. Hierarchical levels compress sequences into higher abstractions (e.g., character n-grams to word-like vectors, then sentence-like), with reconstruction via our Denoising Diffusion Mixed Model (DDMM) for stable and efficient denoising in latent space. A Stitcher ensures overlap invariance across segments. Trained end-to-end on Wikipedia, Zonkey generates coherent, variable-length text from noise, demonstrating emergent hierarchies and promising qualitative alignment to data distributions compared to entropy-based learnable tokenizers. Our approach advances toward fully gradient-based LLMs, with potential for better domain adaptation and scalable generation. We release the source code for training and reproducing our experiments.

  • 1 authors
·
Jan 29

DNA Sequence Classification with Compressors

Recent studies in DNA sequence classification have leveraged sophisticated machine learning techniques, achieving notable accuracy in categorizing complex genomic data. Among these, methods such as k-mer counting have proven effective in distinguishing sequences from varied species like chimpanzees, dogs, and humans, becoming a staple in contemporary genomic research. However, these approaches often demand extensive computational resources, posing a challenge in terms of scalability and efficiency. Addressing this issue, our study introduces a novel adaptation of Jiang et al.'s compressor-based, parameter-free classification method, specifically tailored for DNA sequence analysis. This innovative approach utilizes a variety of compression algorithms, such as Gzip, Brotli, and LZMA, to efficiently process and classify genomic sequences. Not only does this method align with the current state-of-the-art in terms of accuracy, but it also offers a more resource-efficient alternative to traditional machine learning methods. Our comprehensive evaluation demonstrates the proposed method's effectiveness in accurately classifying DNA sequences from multiple species. We present a detailed analysis of the performance of each algorithm used, highlighting the strengths and limitations of our approach in various genomic contexts. Furthermore, we discuss the broader implications of our findings for bioinformatics, particularly in genomic data processing and analysis. The results of our study pave the way for more efficient and scalable DNA sequence classification methods, offering significant potential for advancements in genomic research and applications.

  • 1 authors
·
Jan 25, 2024

FlashAttention: Fast and Memory-Efficient Exact Attention with IO-Awareness

Transformers are slow and memory-hungry on long sequences, since the time and memory complexity of self-attention are quadratic in sequence length. Approximate attention methods have attempted to address this problem by trading off model quality to reduce the compute complexity, but often do not achieve wall-clock speedup. We argue that a missing principle is making attention algorithms IO-aware -- accounting for reads and writes between levels of GPU memory. We propose FlashAttention, an IO-aware exact attention algorithm that uses tiling to reduce the number of memory reads/writes between GPU high bandwidth memory (HBM) and GPU on-chip SRAM. We analyze the IO complexity of FlashAttention, showing that it requires fewer HBM accesses than standard attention, and is optimal for a range of SRAM sizes. We also extend FlashAttention to block-sparse attention, yielding an approximate attention algorithm that is faster than any existing approximate attention method. FlashAttention trains Transformers faster than existing baselines: 15% end-to-end wall-clock speedup on BERT-large (seq. length 512) compared to the MLPerf 1.1 training speed record, 3times speedup on GPT-2 (seq. length 1K), and 2.4times speedup on long-range arena (seq. length 1K-4K). FlashAttention and block-sparse FlashAttention enable longer context in Transformers, yielding higher quality models (0.7 better perplexity on GPT-2 and 6.4 points of lift on long-document classification) and entirely new capabilities: the first Transformers to achieve better-than-chance performance on the Path-X challenge (seq. length 16K, 61.4% accuracy) and Path-256 (seq. length 64K, 63.1% accuracy).

  • 5 authors
·
May 27, 2022 4

LOCO Codes Can Correct as Well: Error-Correction Constrained Coding for DNA Data Storage

As a medium for cold data storage, DNA stands out as it promises significant gains in storage capacity and lifetime. However, it comes with its own data processing challenges to overcome. Constrained codes over the DNA alphabet {A,T,G,C} have been used to design DNA sequences that are free of long homopolymers to increase stability, yet effective error detection and error correction are required to achieve reliability in data retrieval. Recently, we introduced lexicographically-ordered constrained (LOCO) codes, namely DNA LOCO (D-LOCO) codes, with error detection. In this paper, we equip our D-LOCO codes with error correction for substitution errors via syndrome-like decoding, designated as residue decoding. We only use D-LOCO codewords of indices divisible by a suitable redundancy metric R(m) > 0, where m is the code length, for error correction. We provide the community with a construction of constrained codes forbidding runs of length higher than fixed ell in {1,2,3} and GC-content in big [0.5-1{2K},0.5+1{2K}big ] that correct K segmented substitution errors, one per codeword. We call the proposed codes error-correction (EC) D-LOCO codes. We also give a list-decoding procedure with near-quadratic time-complexity in m to correct double-substitution errors within EC D-LOCO codewords, which has > 98.20% average success rate. The redundancy metric is projected to require 2log_2(m)+O(1)-bit allocation for a length-m codeword. Hence, our EC D-LOCO codes are projected to be capacity-approaching with respect to the error-free constrained system.

  • 2 authors
·
Apr 1, 2025

Training LLMs over Neurally Compressed Text

In this paper, we explore the idea of training large language models (LLMs) over highly compressed text. While standard subword tokenizers compress text by a small factor, neural text compressors can achieve much higher rates of compression. If it were possible to train LLMs directly over neurally compressed text, this would confer advantages in training and serving efficiency, as well as easier handling of long text spans. The main obstacle to this goal is that strong compression tends to produce opaque outputs that are not well-suited for learning. In particular, we find that text na\"ively compressed via Arithmetic Coding is not readily learnable by LLMs. To overcome this, we propose Equal-Info Windows, a novel compression technique whereby text is segmented into blocks that each compress to the same bit length. Using this method, we demonstrate effective learning over neurally compressed text that improves with scale, and outperforms byte-level baselines by a wide margin on perplexity and inference speed benchmarks. While our method delivers worse perplexity than subword tokenizers for models trained with the same parameter count, it has the benefit of shorter sequence lengths. Shorter sequence lengths require fewer autoregressive generation steps, and reduce latency. Finally, we provide extensive analysis of the properties that contribute to learnability, and offer concrete suggestions for how to further improve the performance of high-compression tokenizers.

  • 7 authors
·
Apr 4, 2024 3

Squeezed Attention: Accelerating Long Context Length LLM Inference

Emerging Large Language Model (LLM) applications require long input prompts to perform complex downstream tasks like document analysis and code generation. For these long context length applications, the length of the input prompt poses a significant challenge in terms of inference efficiency since the inference costs increase linearly with sequence length. However, for many of these applications, much of the context in the prompt is fixed across different user inputs, thereby providing the opportunity to perform offline optimizations to process user inputs quickly, as they are received. In this work, we propose Squeezed Attention as a mechanism to accelerate LLM applications where a large portion of the input prompt is fixed. We first leverage K-means clustering offline to group the keys for the fixed context based on semantic similarity and represent each cluster with a single centroid value. During inference, we compare query tokens from the user input with the centroids to predict which of the keys from the fixed context are semantically relevant and need to be loaded during inference. We then compute exact attention using only these important keys from the fixed context, thereby reducing bandwidth and computational costs. We also extend our method to use a hierarchical centroid lookup to identify important keys, which can reduce the complexity of attention from linear to logarithmic with respect to the context length. We implement optimized Triton kernels for centroid comparison and sparse FlashAttention with important keys, achieving more than 4x speedups during both the prefill and generation phases for long-context inference. Furthermore, we have extensively evaluated our method on various long-context benchmarks including LongBench, where it achieves a 3x reduction in KV cache budget without accuracy loss and up to an 8x reduction with <0.5 point accuracy gap for various models.

  • 8 authors
·
Nov 14, 2024

The Imitation Game: Turing Machine Imitator is Length Generalizable Reasoner

Length generalization, the ability to solve problems of longer sequences than those observed during training, poses a core challenge of Transformer-based large language models (LLM). Although existing studies have predominantly focused on data-driven approaches for arithmetic operations and symbolic manipulation tasks, these approaches tend to be task-specific with limited overall performance. To pursue a more general solution, this paper focuses on a broader case of reasoning problems that are computable, i.e., problems that algorithms can solve, thus can be solved by the Turing Machine. From this perspective, this paper proposes Turing MAchine Imitation Learning (TAIL) to improve the length generalization ability of LLMs. TAIL synthesizes chain-of-thoughts (CoT) data that imitate the execution process of a Turing Machine by computer programs, which linearly expands the reasoning steps into atomic states to alleviate shortcut learning and explicit memory fetch mechanism to reduce the difficulties of dynamic and long-range data access in elementary operations. To validate the reliability and universality of TAIL, we construct a challenging synthetic dataset covering 8 classes of algorithms and 18 tasks. Without bells and whistles, TAIL significantly improves the length generalization ability as well as the performance of Qwen2.5-7B on various tasks using only synthetic data, surpassing previous methods and DeepSeek-R1. The experimental results reveal that the key concepts in the Turing Machine, instead of the thinking styles, are indispensable for TAIL for length generalization, through which the model exhibits read-and-write behaviors consistent with the properties of the Turing Machine in their attention layers. This work provides a promising direction for future research in the learning of LLM reasoning from synthetic data.

internlm Intern Large Models
·
Jul 17, 2025 3

Predict-then-Diffuse: Adaptive Response Length for Compute-Budgeted Inference in Diffusion LLMs

Diffusion-based Large Language Models (D-LLMs) represent a promising frontier in generative AI, offering fully parallel token generation that can lead to significant throughput advantages and superior GPU utilization over the traditional autoregressive paradigm. However, this parallelism is constrained by the requirement of a fixed-size response length prior to generation. This architectural limitation imposes a severe trade-off: oversized response length results in computational waste on semantically meaningless padding tokens, while undersized response length causes output truncation requiring costly re-computations that introduce unpredictable latency spikes. To tackle this issue, we propose Predict-then-Diffuse, a simple and model-agnostic framework that enables compute-budgeted inference per input query by first estimating the response length and then using it to run inference with D-LLM. At its core lies an Adaptive Response Length Predictor (AdaRLP), which estimates the optimal response length given an input query. As a measure against under-estimating the response length and re-running inference with a higher value, we introduce a data-driven safety mechanism based on a small increase of the predicted length. As a whole, our framework avoids wasting computation on padding tokens, at the same time preserving output quality. Experimental validation on multiple datasets demonstrates that Predict-then-Diffuse significantly reduces computational costs (FLOP) compared to the default D-LLM inference mechanism, while being robust to skewed data distributions.

  • 3 authors
·
May 13

Understanding Agent Scaling in LLM-Based Multi-Agent Systems via Diversity

LLM-based multi-agent systems (MAS) have emerged as a promising approach to tackle complex tasks that are difficult for individual LLMs. A natural strategy is to scale performance by increasing the number of agents; however, we find that such scaling exhibits strong diminishing returns in homogeneous settings, while introducing heterogeneity (e.g., different models, prompts, or tools) continues to yield substantial gains. This raises a fundamental question: what limits scaling, and why does diversity help? We present an information-theoretic framework showing that MAS performance is bounded by the intrinsic task uncertainty, not by agent count. We derive architecture-agnostic bounds demonstrating that improvements depend on how many effective channels the system accesses. Homogeneous agents saturate early because their outputs are strongly correlated, whereas heterogeneous agents contribute complementary evidence. We further introduce K^*, an effective channel count that quantifies the number of effective channels without ground-truth labels. Empirically, we show that heterogeneous configurations consistently outperform homogeneous scaling: 2 diverse agents can match or exceed the performance of 16 homogeneous agents. Our results provide principled guidelines for building efficient and robust MAS through diversity-aware design. Code and Dataset are available at the link: https://github.com/SafeRL-Lab/Agent-Scaling.

  • 8 authors
·
Feb 3

Parallel-in-Time Training of Recurrent Neural Networks for Dynamical Systems Reconstruction

Reconstructing nonlinear dynamical systems (DS) from data (DSR) is a fundamental challenge in science and engineering, but it inherently relies on sequential models. Recent breakthroughs for sequential models have produced algorithms that parallelize computation along sequence length T, achieving logarithmic time complexity, O(log T). Since sequence lengths have been practically limited due to the linear runtime complexity O(T) of classical backpropagation through time, this opens new avenues for DSR. This paper studies two prominent classes of parallel-in-time algorithms for this task, both of which leverage parallel associative scans as their core computational primitive. The first class comprises models with linear yet non-autonomous dynamics and a nonlinear readout, such as modern State Space Models (SSMs), while the second consists of general nonlinear models which can be parallelized using the DEER framework. We find that the linear training-time recurrence of the first class of models imposes limitations that often hinder learning of accurate nonlinear dynamics. To address this, we augment DEER with Generalized Teacher Forcing (GTF), a novel variant within the more general nonlinear framework that ensures stable and effective learning of nonlinear dynamics across arbitrary sequence lengths. Using GTF-DEER, we investigate the benefits of training on extremely long sequences (T>10^4) for DSR. Our results show that access to such long trajectories significantly improves DSR if the data features long time scales. This work establishes GTF-DEER as a robust tool for data-driven discovery and underscores the largely untapped potential of long-sequence learning in modeling complex DS.

  • 3 authors
·
May 11

Gecko: An Efficient Neural Architecture Inherently Processing Sequences with Arbitrary Lengths

Designing a unified neural network to efficiently and inherently process sequential data with arbitrary lengths is a central and challenging problem in sequence modeling. The design choices in Transformer, including quadratic complexity and weak length extrapolation, have limited their ability to scale to long sequences. In this work, we propose Gecko, a neural architecture that inherits the design of Mega and Megalodon (exponential moving average with gated attention), and further introduces multiple technical components to improve its capability to capture long range dependencies, including timestep decay normalization, sliding chunk attention mechanism, and adaptive working memory. In a controlled pretraining comparison with Llama2 and Megalodon in the scale of 7 billion parameters and 2 trillion training tokens, Gecko achieves better efficiency and long-context scalability. Gecko reaches a training loss of 1.68, significantly outperforming Llama2-7B (1.75) and Megalodon-7B (1.70), and landing close to Llama2-13B (1.67). Notably, without relying on any context-extension techniques, Gecko exhibits inherent long-context processing and retrieval capabilities, stably handling sequences of up to 4 million tokens and retrieving information from contexts up to 4times longer than its attention window. Code: https://github.com/XuezheMax/gecko-llm

ByteScale: Efficient Scaling of LLM Training with a 2048K Context Length on More Than 12,000 GPUs

Scaling long-context ability is essential for Large Language Models (LLMs). To amortize the memory consumption across multiple devices in long-context training, inter-data partitioning (a.k.a. Data Parallelism) and intra-data partitioning (a.k.a. Context Parallelism) are commonly used. Current training frameworks predominantly treat the two techniques as orthogonal, and establish static communication groups to organize the devices as a static mesh (e.g., a 2D mesh). However, the sequences for LLM training typically vary in lengths, no matter for texts, multi-modalities or reinforcement learning. The mismatch between data heterogeneity and static mesh causes redundant communication and imbalanced computation, degrading the training efficiency. In this work, we introduce ByteScale, an efficient, flexible, and scalable LLM training framework for large-scale mixed training of long and short sequences. The core of ByteScale is a novel parallelism strategy, namely Hybrid Data Parallelism (HDP), which unifies the inter- and intra-data partitioning with a dynamic mesh design. In particular, we build a communication optimizer, which eliminates the redundant communication for short sequences by data-aware sharding and dynamic communication, and further compresses the communication cost for long sequences by selective offloading. Besides, we also develop a balance scheduler to mitigate the imbalanced computation by parallelism-aware data assignment. We evaluate ByteScale with the model sizes ranging from 7B to 141B, context lengths from 256K to 2048K, on a production cluster with more than 12,000 GPUs. Experiment results show that ByteScale outperforms the state-of-the-art training system by up to 7.89x.

  • 9 authors
·
Feb 28, 2025

Training Long-Context Vision-Language Models Effectively with Generalization Beyond 128K Context

Long-context modeling is becoming a core capability of modern large vision-language models (LVLMs), enabling sustained context management across long-document understanding, video analysis, and multi-turn tool use in agentic workflows. Yet practical training recipes remain insufficiently explored, particularly for designing and balancing long-context data mixtures. In this work, we present a systematic study of long-context continued pre-training for LVLMs, extending a 7B model from 32K to 128K context with extensive ablations on long-document data. We first show that long-document VQA is substantially more effective than OCR transcription. Building on this observation, our ablations further yield three key findings: i) for sequence-length distribution, balanced data outperforms target-length-focused data (e.g., 128K), suggesting that long-context ability requires generalizable key-information retrieval across various lengths and positions; ii) retrieval remains the primary bottleneck, favoring retrieval-heavy mixtures with modest reasoning data for task diversity; and iii) pure long-document VQA largely preserves short-context capabilities, suggesting that instruction-formatted long data reduces the need for short-data mixing. Based on these findings, we introduce MMProLong, obtained by long-context continued pre-training from Qwen2.5-VL-7B with only a 5B-token budget. MMProLong improves long-document VQA scores by 7.1% and maintains strong performance at 256K and 512K contexts beyond its 128K training window, without additional training. It further generalizes to webpage-based multimodal needle retrieval, long-context vision-text compression, and long-video understanding without task-specific supervision. Overall, our study establishes a practical LongPT recipe and an empirical foundation for advancing long-context vision-language models.

GENERator: A Long-Context Generative Genomic Foundation Model

Advancements in DNA sequencing technologies have significantly improved our ability to decode genomic sequences. However, the prediction and interpretation of these sequences remain challenging due to the intricate nature of genetic material. Large language models (LLMs) have introduced new opportunities for biological sequence analysis. Recent developments in genomic language models have underscored the potential of LLMs in deciphering DNA sequences. Nonetheless, existing models often face limitations in robustness and application scope, primarily due to constraints in model structure and training data scale. To address these limitations, we present GENERator, a generative genomic foundation model featuring a context length of 98k base pairs (bp) and 1.2B parameters. Trained on an expansive dataset comprising 386B bp of eukaryotic DNA, the GENERator demonstrates state-of-the-art performance across both established and newly proposed benchmarks. The model adheres to the central dogma of molecular biology, accurately generating protein-coding sequences that translate into proteins structurally analogous to known families. It also shows significant promise in sequence optimization, particularly through the prompt-responsive generation of promoter sequences with specific activity profiles. These capabilities position the GENERator as a pivotal tool for genomic research and biotechnological advancement, enhancing our ability to interpret and predict complex biological systems and enabling precise genomic interventions.

  • 8 authors
·
Feb 11, 2025

LAPS: A Length-Aware-Prefill LLM Serving System

LAPS identifies and disaggregates requests with different prompt lengths in LLM serving to reduce TTFT latency. While recent systems have decoupled the prefill and decode stages to improve throughput, they still rely on unified scheduling policies that fail to adapt to heterogeneous workload characteristics. We observe that prompt-length variations lead to distinct performance bottlenecks, motivating an adaptive scheduling strategy. LAPS disaggregates multi-turn long-prefill requests from short-prefill ones and introduces a length-aware smart batching mechanism for short-prefill workloads. It adopts a dual-queue design that supports temporal disaggregation on a single prefill instance or spatial disaggregation across multiple instances. For short-prefill batches, a batch waiting window and CUDA Graph-based clustering mitigate interference from heterogeneous computation, reducing batching delay and lowering average latency. In real multi-turn workloads, LAPS reduces prefill latency by over 30\% compared to vanilla SGLang under prefill-decode disaggregation, and further decreases SLO violations by 28\% in multi-instance deployments with vanilla data-parallel configuration. Compared to the SGLang router with load balancing, it further lowers SLO violations by 12\% in multi-GPU settings. Under high concurrency and mixed-request scenarios, LAPS improves request throughput by 35\% serving Qwen2.5-32B model for prefill instance, demonstrating its effectiveness in optimizing heterogeneous LLM serving workloads.

  • 10 authors
·
Jan 4

Stuffed Mamba: State Collapse and State Capacity of RNN-Based Long-Context Modeling

One essential advantage of recurrent neural networks (RNNs) over transformer-based language models is their linear computational complexity concerning the sequence length, which makes them much faster in handling long sequences during inference. However, most publicly available RNNs (e.g., Mamba and RWKV) are trained on sequences with less than 10K tokens, and their effectiveness in longer contexts remains largely unsatisfying so far. In this paper, we study the cause of the inability to process long context for RNNs and suggest critical mitigations. We examine two practical concerns when applying state-of-the-art RNNs to long contexts: (1) the inability to extrapolate to inputs longer than the training length and (2) the upper bound of memory capacity. Addressing the first concern, we first investigate *state collapse* (SC), a phenomenon that causes severe performance degradation on sequence lengths not encountered during training. With controlled experiments, we attribute this to overfitting due to the recurrent state being overparameterized for the training length. For the second concern, we train a series of Mamba-2 models on long documents to empirically estimate the recurrent state capacity in language modeling and passkey retrieval. Then, three SC mitigation methods are proposed to improve Mamba-2's length generalizability, allowing the model to process more than 1M tokens without SC. We also find that the recurrent state capacity in passkey retrieval scales exponentially to the state size, and we empirically train a Mamba-2 370M with near-perfect passkey retrieval accuracy on 256K context length. This suggests a promising future for RNN-based long-context modeling.

  • 6 authors
·
Oct 9, 2024 3

StreamBP: Memory-Efficient Exact Backpropagation for Long Sequence Training of LLMs

Training language models on long sequence data is a demanding requirement for enhancing the model's capability on complex tasks, e.g., long-chain reasoning. However, as the sequence length scales up, the memory cost for storing activation values becomes huge during the Backpropagation (BP) process, even with the application of gradient checkpointing technique. To tackle this challenge, we propose a memory-efficient and exact BP method called StreamBP, which performs a linear decomposition of the chain rule along the sequence dimension in a layer-wise manner, significantly reducing the memory cost of activation values and logits. The proposed method is applicable to common objectives such as SFT, GRPO, and DPO. From an implementation perspective, StreamBP achieves less computational FLOPs and faster BP speed by leveraging the causal structure of the language model. Compared to gradient checkpointing, StreamBP scales up the maximum sequence length of BP by 2.8-5.5 times larger, while using comparable or even less BP time. Note that StreamBP's sequence length scaling ability can be directly transferred to batch size scaling for accelerating training. We further develop a communication-efficient distributed StreamBP to effectively support multi-GPU training and broaden its applicability. Our code can be easily integrated into the training pipeline of any transformer models and is available at https://github.com/Ledzy/StreamBP.

  • 4 authors
·
Jun 3, 2025 2

TS-Haystack: A Multi-Scale Retrieval Benchmark for Time Series Language Models

Time Series Language Models (TSLMs) are emerging as unified models for reasoning over continuous signals in natural language. However, long-context retrieval remains a major limitation: existing models are typically trained and evaluated on short sequences, while real-world time-series sensor streams can span millions of datapoints. This mismatch requires precise temporal localization under strict computational constraints, a regime that is not captured by current benchmarks. We introduce TS-Haystack, a long-context temporal retrieval benchmark comprising ten task types across four categories: direct retrieval, temporal reasoning, multi-step reasoning and contextual anomaly. The benchmark uses controlled needle insertion by embedding short activity bouts into longer longitudinal accelerometer recordings, enabling systematic evaluation across context lengths ranging from seconds to 2 hours per sample. We hypothesize that existing TSLM time series encoders overlook temporal granularity as context length increases, creating a task-dependent effect: compression aids classification but impairs retrieval of localized events. Across multiple model and encoding strategies, we observe a consistent divergence between classification and retrieval behavior. Learned latent compression preserves or improves classification accuracy at compression ratios up to 176times, but retrieval performance degrades with context length, incurring in the loss of temporally localized information. These results highlight the importance of architectural designs that decouple sequence length from computational complexity while preserving temporal fidelity.

  • 10 authors
·
Feb 15

ONEBench to Test Them All: Sample-Level Benchmarking Over Open-Ended Capabilities

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.

  • 6 authors
·
Dec 9, 2024 2

UniRec: A Dual Enhancement of Uniformity and Frequency in Sequential Recommendations

Representation learning in sequential recommendation is critical for accurately modeling user interaction patterns and improving recommendation precision. However, existing approaches predominantly emphasize item-to-item transitions, often neglecting the time intervals between interactions, which are closely related to behavior pattern changes. Additionally, broader interaction attributes, such as item frequency, are frequently overlooked. We found that both sequences with more uniform time intervals and items with higher frequency yield better prediction performance. Conversely, non-uniform sequences exacerbate user interest drift and less-frequent items are difficult to model due to sparse sampling, presenting unique challenges inadequately addressed by current methods. In this paper, we propose UniRec, a novel bidirectional enhancement sequential recommendation method. UniRec leverages sequence uniformity and item frequency to enhance performance, particularly improving the representation of non-uniform sequences and less-frequent items. These two branches mutually reinforce each other, driving comprehensive performance optimization in complex sequential recommendation scenarios. Additionally, we present a multidimensional time module to further enhance adaptability. To the best of our knowledge, UniRec is the first method to utilize the characteristics of uniformity and frequency for feature augmentation. Comparing with eleven advanced models across four datasets, we demonstrate that UniRec outperforms SOTA models significantly. The code is available at https://github.com/Linxi000/UniRec.

  • 3 authors
·
Jun 26, 2024

SuffixDecoding: Extreme Speculative Decoding for Emerging AI Applications

Speculative decoding is widely adopted to reduce latency in large language model (LLM) inference by leveraging smaller draft models capable of handling diverse user tasks. However, emerging AI applications, such as LLM-based agents, present unique workload characteristics: instead of diverse independent requests, agentic frameworks typically submit repetitive inference requests, such as multi-agent pipelines performing similar subtasks or self-refinement loops iteratively enhancing outputs. These workloads result in long and highly predictable sequences, which current speculative decoding methods do not effectively exploit. To address this gap, we introduce SuffixDecoding, a novel method that utilizes efficient suffix trees to cache long token sequences from prompts and previous outputs. By adaptively speculating more tokens when acceptance likelihood is high and fewer when it is low, SuffixDecoding effectively exploits opportunities for longer speculations while conserving computation when those opportunities are limited. Evaluations on agentic benchmarks, including SWE-Bench and Text-to-SQL, demonstrate that SuffixDecoding achieves speedups of up to 5.3times, outperforming state-of-the-art methods -- 2.8times faster than model-based approaches like EAGLE-2/3 and 1.9times faster than model-free approaches such as Token Recycling. SuffixDecoding is open-sourced at https://github.com/snowflakedb/ArcticInference

  • 4 authors
·
Nov 7, 2024