We propose BlockScan, a customized Transformer for anomaly detection in blockchain transactions. Unlike existing methods that rely on rule-based systems or directly apply off-the-shelf large language models (LLMs), BlockScan introduces a series of customized designs to effectively model the unique data structure of blockchain transactions. First, a blockchain transaction is multi-modal, containing blockchain-specific tokens, texts, and numbers. We design a novel modularized tokenizer to handle these multi-modal inputs, balancing the information across different modalities. Second, we design a customized masked language modeling mechanism for pretraining the Transformer architecture, incorporating RoPE embedding and FlashAttention for handling longer sequences. Finally, we design a novel anomaly detection method based on the model outputs.

Attention with bias, which extends standard attention by introducing prior knowledge as an additive bias matrix to the query-key scores, has been widely deployed in vision, language, protein-folding and other advanced scientific models, underscoring its status as a key evolution of this foundational module. However, introducing bias terms creates a severe efficiency bottleneck in attention computation. It disrupts the tightly fused memory-compute pipeline that underlies the speed of accelerators like FlashAttention, thereby stripping away most of their performance gains and leaving biased attention computationally expensive. Surprisingly, despite its common usage, targeted efficiency optimization for attention with bias remains absent, which seriously hinders its application in complex tasks. Diving into the computation of FlashAttention, we prove that its optimal efficiency is determined by the rank of the attention weight matrix. Inspired by this theoretical result, this paper presents FlashBias based on the low-rank compressed sensing theory, which can provide fast-exact computation for many widely used attention biases and a fast-accurate approximation for biases in general formalizations. FlashBias can fully take advantage of the extremely optimized matrix multiplication operation in modern GPUs, achieving 1.5 speedup for Pairformer in AlphaFold 3, and over 2 speedup for attention with bias in vision and language models without loss of accuracy. Code is available at this repository: https://github.com/thuml/FlashBias.

Invariant Point Attention (IPA) is a key algorithm for geometry-aware modeling in structural biology, central to many protein and RNA models. However, its quadratic complexity limits the input sequence length. We introduce FlashIPA, a factorized reformulation of IPA that leverages hardware-efficient FlashAttention to achieve linear scaling in GPU memory and wall-clock time with sequence length. FlashIPA matches or exceeds standard IPA performance while substantially reducing computational costs. FlashIPA extends training to previously unattainable lengths, and we demonstrate this by re-training generative models without length restrictions and generating structures of thousands of residues.

Attention with bias, which extends standard attention by introducing prior knowledge as an additive bias matrix to the query-key scores, has been widely deployed in vision, language, protein-folding and other advanced scientific models, underscoring its status as a key evolution of this foundational module. However, introducing bias terms creates a severe efficiency bottleneck in attention computation. It disrupts the tightly fused memory-compute pipeline that underlies the speed of accelerators like FlashAttention, thereby stripping away most of their performance gains and leaving biased attention computationally expensive. Surprisingly, despite its common usage, targeted efficiency optimization for attention with bias remains absent, which seriously hinders its application in complex tasks. Diving into the computation of FlashAttention, we prove that its optimal efficiency is determined by the rank of the attention weight matrix. Inspired by this theoretical result, this paper presents FlashBias based on the low-rank compressed sensing theory, which can provide fast-exact computation for many widely used attention biases and a fast-accurate approximation for biases in general formalizations. FlashBias can fully take advantage of the extremely optimized matrix multiplication operation in modern GPUs, achieving 1.5$\times$ speedup for Pairformer in AlphaFold 3, and over 2$\times$ speedup for attention with bias in vision and language models without loss of accuracy. Code is available at this repository: https://github.com/thuml/FlashBias.

Transformer-based language models have found many diverse applications requiring them to process sequences of increasing length.

We argue that a missing principle is making attention algorithmsIO-aware-- accounting for reads and writes between levels of GPU memory.

We argue that a missing principle is making attention algorithmsIO-aware-- accounting for reads and writes between levels of GPU memory.

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, yielding an approximate attention algorithm that is faster than any existing approximate attention method.

Large language model fine-tuning is bottlenecked by memory: a 7B parameter model requires 84GB--14GB for weights, 14GB for gradients, and 56GB for FP32 optimizer states--exceeding even A100-40GB capacity. We present Chronicals, an open-source training framework achieving 3.51x speedup over Unsloth through four synergistic optimizations: (1) fused Triton kernels eliminating 75% of memory traffic via RMSNorm (7x), SwiGLU (5x), and QK-RoPE (2.3x) fusion; (2) Cut Cross-Entropy reducing logit memory from 5GB to 135MB through online softmax computation; (3) LoRA+ with theoretically-derived 16x differential learning rates between adapter matrices; and (4) Best-Fit Decreasing sequence packing recovering 60-75% of compute wasted on padding. On Qwen2.5-0.5B with A100-40GB, Chronicals achieves 41,184 tokens/second for full fine-tuning versus Unsloth's 11,736 tokens/second (3.51x). For LoRA at rank 32, we reach 11,699 tokens/second versus Unsloth MAX's 2,857 tokens/second (4.10x). Critically, we discovered that Unsloth's reported 46,000 tokens/second benchmark exhibited zero gradient norms--the model was not training. We provide complete mathematical foundations: online softmax correctness proofs, FlashAttention IO complexity bounds O(N^2 d^2 M^{-1}), LoRA+ learning rate derivations from gradient magnitude analysis, and bin-packing approximation guarantees. All implementations, benchmarks, and proofs are available at https://github.com/Ajwebdevs/Chronicals with pip installation via https://pypi.org/project/chronicals/.

Transformer-based language models have found many diverse applications requiring them to process sequences of increasing length. For these applications, the causal self-attention---which is the only component scaling quadratically w.r.t. the sequence length---becomes a central concern. While many works have proposed schemes to sparsify the attention patterns and reduce the computational overhead of self-attention, those are often limited by implementation concerns and end up imposing a simple and static structure over the attention matrix. Conversely, implementing more dynamic sparse attention often results in runtimes significantly slower than computing the full attention using the Flash implementation from Dao et al. (2022). We extend FlashAttention to accommodate a large class of attention sparsity patterns that, in particular, encompass key/query dropping and hashing-based attention. This leads to implementations with no computational complexity overhead and a multi-fold runtime speedup on top of FlashAttention. Even with relatively low degrees of sparsity, our method improves visibly upon FlashAttention as the sequence length increases. Without sacrificing perplexity, we increase the training speed of a transformer language model by $2.0\times$ and $3.3\times$ for sequences of respectively $8k$ and $16k$ tokens.