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Zihan Liu

Publications and source records attributed to Zihan Liu.

At least 109 records · Page 6Linked to original sources
arXiv2024

GMLake: Efficient and Transparent GPU Memory Defragmentation for Large-scale DNN Training with Virtual Memory Stitching

Large-scale deep neural networks (DNNs), such as large language models (LLMs), have revolutionized the artificial intelligence (AI) field and become increasingly popular. However, training or fine-tuning such models requires substantial computational power and resources, where the memory capacity of a single acceleration device like a GPU is one of the most important bottlenecks. Owing to the prohibitively large overhead (e.g., $10 \times$) of GPUs' native memory allocator, DNN frameworks like PyTorch and TensorFlow adopt a caching allocator that maintains a memory pool with a splitting mechanism for fast memory (de)allocation. Unfortunately, the caching allocator's efficiency degrades quickly for popular memory reduction techniques such as recomputation, offloading, distributed training, and low-rank adaptation. The primary reason is that those memory reduction techniques introduce frequent and irregular memory (de)allocation requests, leading to severe fragmentation problems for the splitting-based caching allocator. To mitigate this fragmentation problem, we propose a novel memory allocation framework based on low-level GPU virtual memory management called GPU memory lake (GMLake). GMLake employs a novel virtual memory stitching (VMS) mechanism, which can fuse or combine non-contiguous memory blocks with a virtual memory address mapping. GMLake can reduce an average of 9.2 GB (up to 25 GB) GPU memory usage and 15% (up to 33% ) fragmentation among eight LLM models on GPU A100 with 80 GB memory. GMLake is completely transparent to the DNN models and memory reduction techniques and ensures the seamless execution of resource-intensive deep-learning tasks. We have open-sourced GMLake at https://github.com/intelligent-machine-learning/glake/tree/main/GMLake.

cs.DC↗
arXiv2023

Shall We Pretrain Autoregressive Language Models with Retrieval? A Comprehensive Study

Large decoder-only language models (LMs) can be largely improved in terms of perplexity by retrieval (e.g., RETRO), but its impact on text generation quality and downstream task accuracy is unclear. Thus, it is still an open question: shall we pretrain large autoregressive LMs with retrieval? To answer it, we perform a comprehensive study on a scalable pre-trained retrieval-augmented LM (i.e., RETRO) compared with standard GPT and retrieval-augmented GPT incorporated at fine-tuning or inference stages. We first provide the recipe to reproduce RETRO up to 9.5B parameters while retrieving a text corpus with 330B tokens. Based on that, we have the following novel findings: i) RETRO outperforms GPT on text generation with much less degeneration (i.e., repetition), moderately higher factual accuracy, and slightly lower toxicity with a nontoxic retrieval database. ii) On the LM Evaluation Harness benchmark, RETRO largely outperforms GPT on knowledge-intensive tasks, but is on par with GPT on other tasks. Furthermore, we introduce a simple variant of the model, RETRO++, which largely improves open-domain QA results of original RETRO (e.g., EM score +8.6 on Natural Question) and significantly outperforms retrieval-augmented GPT in both fine-tuning and zero-shot evaluation settings. Our findings highlight the promising direction of pretraining autoregressive LMs with retrieval as future foundation models. We release our code and model at: https://github.com/NVIDIA/Megatron-LM/blob/main/tools/retro/README.md

cs.CL↗
arXiv2023

JUNO: Optimizing High-Dimensional Approximate Nearest Neighbour Search with Sparsity-Aware Algorithm and Ray-Tracing Core Mapping

Approximate nearest neighbor (ANN) search is a widely applied technique in modern intelligent applications, such as recommendation systems and vector databases. Therefore, efficient and high-throughput execution of ANN search has become increasingly important. In this paper, we first characterize the state-of-the-art product quantization-based method of ANN search and identify a significant source of inefficiency in the form of unnecessary pairwise distance calculations and accumulations. To improve efficiency, we propose JUNO, an end-to-end ANN search system that adopts a carefully designed sparsity- and locality-aware search algorithm. We also present an efficient hardware mapping that utilizes ray tracing cores in modern GPUs with pipelined execution on tensor cores to execute our sparsity-aware ANN search algorithm. Our evaluations on four datasets ranging in size from 1 to 100 million search points demonstrate 2.2x-8.5x improvements in search throughput. Moreover, our algorithmic enhancements alone achieve a maximal 2.6x improvement on the hardware without the acceleration of the RT core.

cs.DC↗
arXiv2023

Re-ViLM: Retrieval-Augmented Visual Language Model for Zero and Few-Shot Image Captioning

Augmenting pretrained language models (LMs) with a vision encoder (e.g., Flamingo) has obtained the state-of-the-art results in image-to-text generation. However, these models store all the knowledge within their parameters, thus often requiring enormous model parameters to model the abundant visual concepts and very rich textual descriptions. Additionally, they are inefficient in incorporating new data, requiring a computational-expensive fine-tuning process. In this work, we introduce a Retrieval-augmented Visual Language Model, Re-ViLM, built upon the Flamingo, that supports retrieving the relevant knowledge from the external database for zero and in-context few-shot image-to-text generations. By storing certain knowledge explicitly in the external database, our approach reduces the number of model parameters and can easily accommodate new data during evaluation by simply updating the database. We also construct an interleaved image and text data that facilitates in-context few-shot learning capabilities. We demonstrate that Re-ViLM significantly boosts performance for image-to-text generation tasks, especially for zero-shot and few-shot generation in out-of-domain settings with 4 times less parameters compared with baseline methods.

cs.CV↗
arXiv2023

SUT: Active Defects Probing for Transcompiler Models

Automatic Program translation has enormous application value and hence has been attracting significant interest from AI researchers. However, we observe that current program translation models still make elementary syntax errors, particularly, when the target language does not have syntax elements in the source language. Metrics like BLUE, CodeBLUE and computation accuracy may not expose these issues. In this paper we introduce a new metrics for programming language translation and these metrics address these basic syntax errors. We develop a novel active defects probing suite called Syntactic Unit Tests (SUT) which includes a highly interpretable evaluation harness for accuracy and test scoring. Experiments have shown that even powerful models like ChatGPT still make mistakes on these basic unit tests. Specifically, compared to previous program translation task evaluation dataset, its pass rate on our unit tests has decreased by 26.15%. Further our evaluation harness reveal syntactic element errors in which these models exhibit deficiencies.

cs.SE↗
arXiv2023

Protein 3D Graph Structure Learning for Robust Structure-based Protein Property Prediction

Protein structure-based property prediction has emerged as a promising approach for various biological tasks, such as protein function prediction and sub-cellular location estimation. The existing methods highly rely on experimental protein structure data and fail in scenarios where these data are unavailable. Predicted protein structures from AI tools (e.g., AlphaFold2) were utilized as alternatives. However, we observed that current practices, which simply employ accurately predicted structures during inference, suffer from notable degradation in prediction accuracy. While similar phenomena have been extensively studied in general fields (e.g., Computer Vision) as model robustness, their impact on protein property prediction remains unexplored. In this paper, we first investigate the reason behind the performance decrease when utilizing predicted structures, attributing it to the structure embedding bias from the perspective of structure representation learning. To study this problem, we identify a Protein 3D Graph Structure Learning Problem for Robust Protein Property Prediction (PGSL-RP3), collect benchmark datasets, and present a protein Structure embedding Alignment Optimization framework (SAO) to mitigate the problem of structure embedding bias between the predicted and experimental protein structures. Extensive experiments have shown that our framework is model-agnostic and effective in improving the property prediction of both predicted structures and experimental structures. The benchmark datasets and codes will be released to benefit the community.

cs.LG↗
arXiv2023

Co-modeling the Sequential and Graphical Routes for Peptide Representation Learning

Peptides are formed by the dehydration condensation of multiple amino acids. The primary structure of a peptide can be represented either as an amino acid sequence or as a molecular graph consisting of atoms and chemical bonds. Previous studies have indicated that deep learning routes specific to sequential and graphical peptide forms exhibit comparable performance on downstream tasks. Despite the fact that these models learn representations of the same modality of peptides, we find that they explain their predictions differently. Considering sequential and graphical models as two experts making inferences from different perspectives, we work on fusing expert knowledge to enrich the learned representations for improving the discriminative performance. To achieve this, we propose a peptide co-modeling method, RepCon, which employs a contrastive learning-based framework to enhance the mutual information of representations from decoupled sequential and graphical end-to-end models. It considers representations from the sequential encoder and the graphical encoder for the same peptide sample as a positive pair and learns to enhance the consistency of representations between positive sample pairs and to repel representations between negative pairs. Empirical studies of RepCon and other co-modeling methods are conducted on open-source discriminative datasets, including aggregation propensity, retention time, antimicrobial peptide prediction, and family classification from Peptide Database. Our results demonstrate the superiority of the co-modeling approach over independent modeling, as well as the superiority of RepCon over other methods under the co-modeling framework. In addition, the attribution on RepCon further corroborates the validity of the approach at the level of model explanation.

cs.LG↗
arXiv2023

Only 5\% Attention Is All You Need: Efficient Long-range Document-level Neural Machine Translation

Document-level Neural Machine Translation (DocNMT) has been proven crucial for handling discourse phenomena by introducing document-level context information. One of the most important directions is to input the whole document directly to the standard Transformer model. In this case, efficiency becomes a critical concern due to the quadratic complexity of the attention module. Existing studies either focus on the encoder part, which cannot be deployed on sequence-to-sequence generation tasks, e.g., Machine Translation (MT), or suffer from a significant performance drop. In this work, we keep the translation performance while gaining 20\% speed up by introducing extra selection layer based on lightweight attention that selects a small portion of tokens to be attended. It takes advantage of the original attention to ensure performance and dimension reduction to accelerate inference. Experimental results show that our method could achieve up to 95\% sparsity (only 5\% tokens attended) approximately, and save 93\% computation cost on the attention module compared with the original Transformer, while maintaining the performance.

cs.CL↗
arXiv2023

Efficient Prediction of Peptide Self-assembly through Sequential and Graphical Encoding

In recent years, there has been an explosion of research on the application of deep learning to the prediction of various peptide properties, due to the significant development and market potential of peptides. Molecular dynamics has enabled the efficient collection of large peptide datasets, providing reliable training data for deep learning. However, the lack of systematic analysis of the peptide encoding, which is essential for AI-assisted peptide-related tasks, makes it an urgent problem to be solved for the improvement of prediction accuracy. To address this issue, we first collect a high-quality, colossal simulation dataset of peptide self-assembly containing over 62,000 samples generated by coarse-grained molecular dynamics (CGMD). Then, we systematically investigate the effect of peptide encoding of amino acids into sequences and molecular graphs using state-of-the-art sequential (i.e., RNN, LSTM, and Transformer) and structural deep learning models (i.e., GCN, GAT, and GraphSAGE), on the accuracy of peptide self-assembly prediction, an essential physiochemical process prior to any peptide-related applications. Extensive benchmarking studies have proven Transformer to be the most powerful sequence-encoding-based deep learning model, pushing the limit of peptide self-assembly prediction to decapeptides. In summary, this work provides a comprehensive benchmark analysis of peptide encoding with advanced deep learning models, serving as a guide for a wide range of peptide-related predictions such as isoelectric points, hydration free energy, etc.

q-bio.BM↗
arXiv2023

DFlow: Efficient Dataflow-based Invocation Workflow Execution for Function-as-a-Service

The Serverless Computing is becoming increasingly popular due to its ease of use and fine-grained billing. These features make it appealing for stateful application or serverless workflow. However, current serverless workflow systems utilize a controlflow-based invocation pattern to invoke functions. In this execution pattern, the function invocation depends on the state of the function. A function can only begin executing once all its precursor functions have completed. As a result, this pattern may potentially lead to longer end-to-end execution time. We design and implement the DFlow, a novel dataflow-based serverless workflow system that achieves high performance for serverless workflow. DFlow introduces a distributed scheduler (DScheduler) by using the dataflow-based invocation pattern to invoke functions. In this pattern, the function invocation depends on the data dependency between functions. The function can start to execute even its precursor functions are still running. DFlow further features a distributed store (DStore) that utilizes effective fine-grained optimization techniques to eliminate function interaction, thereby enabling efficient data exchange. With the support of DScheduler and DStore, DFlow can achieving an average improvement of 60% over CFlow, 40% over FaaSFlow, 25% over FaasFlowRedis, and 40% over KNIX on 99%-ile latency respectively. Further, it can improve network bandwidth utilization by 2x-4x over CFlow and 1.5x-3x over FaaSFlow, FaaSFlowRedis and KNIX, respectively. DFlow effectively reduces the cold startup latency, achieving an average improvement of 5.6x over CFlow and 1.1x over FaaSFlow

cs.DC↗
arXiv2023

Cross-Lingual Cross-Age Group Adaptation for Low-Resource Elderly Speech Emotion Recognition

Speech emotion recognition plays a crucial role in human-computer interactions. However, most speech emotion recognition research is biased toward English-speaking adults, which hinders its applicability to other demographic groups in different languages and age groups. In this work, we analyze the transferability of emotion recognition across three different languages--English, Mandarin Chinese, and Cantonese; and 2 different age groups--adults and the elderly. To conduct the experiment, we develop an English-Mandarin speech emotion benchmark for adults and the elderly, BiMotion, and a Cantonese speech emotion dataset, YueMotion. This study concludes that different language and age groups require specific speech features, thus making cross-lingual inference an unsuitable method. However, cross-group data augmentation is still beneficial to regularize the model, with linguistic distance being a significant influence on cross-lingual transferability. We release publicly release our code at https://github.com/HLTCHKUST/elderly_ser.

cs.CL↗
arXiv2023

AdaptGear: Accelerating GNN Training via Adaptive Subgraph-Level Kernels on GPUs

Graph neural networks (GNNs) are powerful tools for exploring and learning from graph structures and features. As such, achieving high-performance execution for GNNs becomes crucially important. Prior works have proposed to explore the sparsity (i.e., low density) in the input graph to accelerate GNNs, which uses the full-graph-level or block-level sparsity format. We show that they fail to balance the sparsity benefit and kernel execution efficiency. In this paper, we propose a novel system, referred to as AdaptGear, that addresses the challenge of optimizing GNNs performance by leveraging kernels tailored to the density characteristics at the subgraph level. Meanwhile, we also propose a method that dynamically chooses the optimal set of kernels for a given input graph. Our evaluation shows that AdaptGear can achieve a significant performance improvement, up to $6.49 \times$ ($1.87 \times$ on average), over the state-of-the-art works on two mainstream NVIDIA GPUs across various datasets.

cs.DC↗
arXiv2023

Boosting Discriminative Visual Representation Learning with Scenario-Agnostic Mixup

Mixup is a well-known data-dependent augmentation technique for DNNs, consisting of two sub-tasks: mixup generation and classification. However, the recent dominant online training method confines mixup to supervised learning (SL), and the objective of the generation sub-task is limited to selected sample pairs instead of the whole data manifold, which might cause trivial solutions. To overcome such limitations, we comprehensively study the objective of mixup generation and propose \textbf{S}cenario-\textbf{A}gnostic \textbf{Mix}up (SAMix) for both SL and Self-supervised Learning (SSL) scenarios. Specifically, we hypothesize and verify the objective function of mixup generation as optimizing local smoothness between two mixed classes subject to global discrimination from other classes. Accordingly, we propose $η$-balanced mixup loss for complementary learning of the two sub-objectives. Meanwhile, a label-free generation sub-network is designed, which effectively provides non-trivial mixup samples and improves transferable abilities. Moreover, to reduce the computational cost of online training, we further introduce a pre-trained version, SAMix$^\mathcal{P}$, achieving more favorable efficiency and generalizability. Extensive experiments on nine SL and SSL benchmarks demonstrate the consistent superiority and versatility of SAMix compared with existing methods.

cs.CV↗
arXiv2023

RHO ($ρ$): Reducing Hallucination in Open-domain Dialogues with Knowledge Grounding

Dialogue systems can leverage large pre-trained language models and knowledge to generate fluent and informative responses. However, these models are still prone to produce hallucinated responses not supported by the input source, which greatly hinders their application. The heterogeneity between external knowledge and dialogue context challenges representation learning and source integration, and further contributes to unfaithfulness. To handle this challenge and generate more faithful responses, this paper presents RHO ($ρ$) utilizing the representations of linked entities and relation predicates from a knowledge graph (KG). We propose (1) local knowledge grounding to combine textual embeddings with the corresponding KG embeddings; and (2) global knowledge grounding to equip RHO with multi-hop reasoning abilities via the attention mechanism. In addition, we devise a response re-ranking technique based on walks over KG sub-graphs for better conversational reasoning. Experimental results on OpenDialKG show that our approach significantly outperforms state-of-the-art methods on both automatic and human evaluation by a large margin, especially in hallucination reduction (17.54% in FeQA).

cs.CL↗
arXiv2023

What Does the Gradient Tell When Attacking the Graph Structure

Recent research has revealed that Graph Neural Networks (GNNs) are susceptible to adversarial attacks targeting the graph structure. A malicious attacker can manipulate a limited number of edges, given the training labels, to impair the victim model's performance. Previous empirical studies indicate that gradient-based attackers tend to add edges rather than remove them. In this paper, we present a theoretical demonstration revealing that attackers tend to increase inter-class edges due to the message passing mechanism of GNNs, which explains some previous empirical observations. By connecting dissimilar nodes, attackers can more effectively corrupt node features, making such attacks more advantageous. However, we demonstrate that the inherent smoothness of GNN's message passing tends to blur node dissimilarity in the feature space, leading to the loss of crucial information during the forward process. To address this issue, we propose a novel surrogate model with multi-level propagation that preserves the node dissimilarity information. This model parallelizes the propagation of unaggregated raw features and multi-hop aggregated features, while introducing batch normalization to enhance the dissimilarity in node representations and counteract the smoothness resulting from topological aggregation. Our experiments show significant improvement with our approach.Furthermore, both theoretical and experimental evidence suggest that adding inter-class edges constitutes an easily observable attack pattern. We propose an innovative attack loss that balances attack effectiveness and imperceptibility, sacrificing some attack effectiveness to attain greater imperceptibility. We also provide experiments to validate the compromise performance achieved through this attack loss.

cs.LG↗
arXiv2023

Towards Reasonable Budget Allocation in Untargeted Graph Structure Attacks via Gradient Debias

It has become cognitive inertia to employ cross-entropy loss function in classification related tasks. In the untargeted attacks on graph structure, the gradients derived from the attack objective are the attacker's basis for evaluating a perturbation scheme. Previous methods use negative cross-entropy loss as the attack objective in attacking node-level classification models. However, the suitability of the cross-entropy function for constructing the untargeted attack objective has yet been discussed in previous works. This paper argues about the previous unreasonable attack objective from the perspective of budget allocation. We demonstrate theoretically and empirically that negative cross-entropy tends to produce more significant gradients from nodes with lower confidence in the labeled classes, even if the predicted classes of these nodes have been misled. To free up these inefficient attack budgets, we propose a simple attack model for untargeted attacks on graph structure based on a novel attack objective which generates unweighted gradients on graph structures that are not affected by the node confidence. By conducting experiments in gray-box poisoning attack scenarios, we demonstrate that a reasonable budget allocation can significantly improve the effectiveness of gradient-based edge perturbations without any extra hyper-parameter.

cs.LG↗
arXiv2023

Plausible May Not Be Faithful: Probing Object Hallucination in Vision-Language Pre-training

Large-scale vision-language pre-trained (VLP) models are prone to hallucinate non-existent visual objects when generating text based on visual information. In this paper, we systematically study the object hallucination problem from three aspects. First, we examine recent state-of-the-art VLP models, showing that they still hallucinate frequently, and models achieving better scores on standard metrics (e.g., CIDEr) could be more unfaithful. Second, we investigate how different types of image encoding in VLP influence hallucination, including region-based, grid-based, and patch-based. Surprisingly, we find that patch-based features perform the best and smaller patch resolution yields a non-trivial reduction in object hallucination. Third, we decouple various VLP objectives and demonstrate that token-level image-text alignment and controlled generation are crucial to reducing hallucination. Based on that, we propose a simple yet effective VLP loss named ObjMLM to further mitigate object hallucination. Results show that it reduces object hallucination by up to 17.4% when tested on two benchmarks (COCO Caption for in-domain and NoCaps for out-of-domain evaluation).

cs.CL↗
arXiv2023

Improving (Dis)agreement Detection with Inductive Social Relation Information From Comment-Reply Interactions

(Dis)agreement detection aims to identify the authors' attitudes or positions (\textit{agree, disagree, neutral}) towards a specific text. It is limited for existing methods merely using textual information for identifying (dis)agreements, especially for cross-domain settings. Social relation information can play an assistant role in the (dis)agreement task besides textual information. We propose a novel method to extract such relation information from (dis)agreement data into an inductive social relation graph, merely using the comment-reply pairs without any additional platform-specific information. The inductive social relation globally considers the historical discussion and the relation between authors. Textual information based on a pre-trained language model and social relation information encoded by pre-trained RGCN are jointly considered for (dis)agreement detection. Experimental results show that our model achieves state-of-the-art performance for both the in-domain and cross-domain tasks on the benchmark -- DEBAGREEMENT. We find social relations can boost the performance of the (dis)agreement detection model, especially for the long-token comment-reply pairs, demonstrating the effectiveness of the social relation graph. We also explore the effect of the knowledge graph embedding methods, the information fusing method, and the time interval in constructing the social relation graph, which shows the effectiveness of our model.

cs.CL↗