Approximate Structured Diffusion for Sequence Labelling

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.

Block discrete diffusion language models factorize a sequence autoregressively over fixed-size positional blocks, decoupling within-block parallel denoising from across-block conditioning. We argue that this rigid partition wastes structure already present in the sequence: blocks defined by position rather than by content separate semantically coherent tokens and group unrelated ones together. We introduce the \textbf{D}ynamic \textbf{C}hunking \textbf{D}iffusion \textbf{M}odel (DCDM), which replaces positional blocks with content-defined semantic chunks. At its core is Chunking Attention, a differentiable layer that routes tokens into $K$ clusters parameterized by learnable subspaces and shaped end-to-end by the diffusion objective. The resulting cluster assignments induce a chunk-causal attention mask under which a discrete diffusion denoiser factorizes the sequence likelihood autoregressively over semantic chunks, strictly generalizing block discrete diffusion. On downstream benchmarks at parameter scales up to 1.5B, DCDM consistently improves over both unstructured and positional-block diffusion baselines, with the advantage stable across scales and visible early in training.

Sequence labeling is a fine-grained information extraction task, yet existing large language model-based approaches suffer from insufficient domain alignment and low inference efficiency. To address these issues, we propose DIRECT, a framework that addresses these issues through training-time optimization and inference-time rectification. Specifically, DIRECT performs Direct Preference Optimization (DPO) after supervised fine-tuning to strengthen task alignment with human preferences, and introduces a controlled decoding process that enforces fixed output formats and restricts predictions to candidate sets. To further improve efficiency, a template-filling mechanism requires the model to generate only label tokens while reusing prefixed content through the KV Cache, thus reducing redundant computation. Experimental results on eight datasets demonstrate that DIRECT achieves significant improvements in both performance and efficiency compared to existing methods.