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Large Language Models (LLMs) have ignited an innovative surge of AI applications, marking a new era of exciting possibilities equipped with extended context windows. However, hosting these models is cost-prohibitive mainly due to the extensive memory consumption of KV Cache involving long-context modeling. Despite several works proposing to evict unnecessary tokens from the KV Cache, most of them rely on the biased local statistics of accumulated attention scores and report performance using unconvincing metric like perplexity on inadequate short-text evaluation. In this paper, we propose NACL, a general framework for long-context KV cache eviction that achieves more optimal and efficient eviction in a single operation during the encoding phase. Due to NACL's efficiency, we combine more accurate attention score statistics in PROXY TOKENS EVICTION with the diversified random eviction strategy of RANDOM EVICTION, aiming to alleviate the issue of attention bias and enhance the robustness in maintaining pivotal tokens for long-context modeling tasks. Notably, our method significantly improves the performance on short- and long-text tasks by 80% and 76% respectively, reducing KV Cache by up to 50% with over 95% performance maintenance. The code is available at https://github.com/PaddlePaddle/Research/tree/master/NLP/ACL2024-NACL., Comment: Accepted by ACL 2024 (main conference, long paper)

The accuracy of AlphaFold2, a frontier end-to-end structure prediction system, is already close to that of the experimental determination techniques. Due to the complex model architecture and large memory consumption, it requires lots of computational resources and time to train AlphaFold2 from scratch. Efficient AlphaFold2 training could accelerate the development of life science. In this paper, we propose a Parallel Evoformer and Branch Parallelism to speed up the training of AlphaFold2. We conduct sufficient experiments on UniFold implemented in PyTorch and HelixFold implemented in PaddlePaddle, and Branch Parallelism can improve the training performance by 38.67% and 36.93%, respectively. We also demonstrate that the accuracy of Parallel Evoformer could be on par with AlphaFold2 on the CASP14 and CAMEO datasets. The source code is available on https://github.com/PaddlePaddle/PaddleFleetX, Comment: arXiv admin note: substantial text overlap with arXiv:2207.05477

Accurate protein structure prediction can significantly accelerate the development of life science. The accuracy of AlphaFold2, a frontier end-to-end structure prediction system, is already close to that of the experimental determination techniques. Due to the complex model architecture and large memory consumption, it requires lots of computational resources and time to implement the training and inference of AlphaFold2 from scratch. The cost of running the original AlphaFold2 is expensive for most individuals and institutions. Therefore, reducing this cost could accelerate the development of life science. We implement AlphaFold2 using PaddlePaddle, namely HelixFold, to improve training and inference speed and reduce memory consumption. The performance is improved by operator fusion, tensor fusion, and hybrid parallelism computation, while the memory is optimized through Recompute, BFloat16, and memory read/write in-place. Compared with the original AlphaFold2 (implemented with Jax) and OpenFold (implemented with PyTorch), HelixFold needs only 7.5 days to complete the full end-to-end training and only 5.3 days when using hybrid parallelism, while both AlphaFold2 and OpenFold take about 11 days. HelixFold saves 1x training time. We verified that HelixFold's accuracy could be on par with AlphaFold2 on the CASP14 and CAMEO datasets. HelixFold's code is available on GitHub for free download: https://github.com/PaddlePaddle/PaddleHelix/tree/dev/apps/protein_folding/helixfold, and we also provide stable web services on https://paddlehelix.baidu.com/app/drug/protein/forecast.

Object occlusion boundary detection is a fundamental and crucial research problem in computer vision. This is challenging to solve as encountering the extreme boundary/non-boundary class imbalance during training an object occlusion boundary detector. In this paper, we propose to address this class imbalance by up-weighting the loss contribution of false negative and false positive examples with our novel Attention Loss function. We also propose a unified end-to-end multi-task deep object occlusion boundary detection network (DOOBNet) by sharing convolutional features to simultaneously predict object boundary and occlusion orientation. DOOBNet adopts an encoder-decoder structure with skip connection in order to automatically learn multi-scale and multi-level features. We significantly surpass the state-of-the-art on the PIOD dataset (ODS F-score of .702) and the BSDS ownership dataset (ODS F-score of .555), as well as improving the detecting speed to as 0.037s per image on the PIOD dataset.