More Like this

1. Castling-ViT: Compressing Self-Attention via Switching Towards Linear-Angular Attention at Vision Transformer Inference

   https://doi.org/10.1109/CVPR52729.2023.01387  

   You, Haoran ; Xiong, Yunyang ; Dai, Xiaoliang ; Wu, Bichen ; Zhang, Peizhao ; Fan, Haoqi ; Vajda, Peter ; Lin, Yingyan Celine ( June 2023 , 2023 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR))

   Vision Transformers (ViTs) have shown impressive per-formance but still require a high computation cost as compared to convolutional neural networks (CNNs), one rea-son is that ViTs' attention measures global similarities and thus has a quadratic complexity with the number of in-put tokens. Existing efficient ViTs adopt local attention or linear attention, which sacrifice ViTs' capabilities of capturing either global or local context. In this work, we ask an important research question: Can ViTs learn both global and local context while being more efficient during inference? To this end, we propose a framework called Castling- ViT, which trains ViTs using both linear-angular attention and masked softmax-based quadratic attention, but then switches to having only linear-angular attention during inference. Our Castling- ViT leverages angular ker-nels to measure the similarities between queries and keys via spectral angles. And we further simplify it with two techniques: (1) a novel linear-angular attention mechanism: we decompose the angular kernels into linear terms and high-order residuals, and only keep the linear terms; and (2) we adopt two parameterized modules to approximate high-order residuals: a depthwise convolution and an aux-iliary masked softmax attention to help learn global and lo-cal information, where the masks for softmax attention are regularized to gradually become zeros and thus incur no overhead during inference. Extensive experiments validate the effectiveness of our Castling- ViT, e.g., achieving up to a 1.8% higher accuracy or 40% MACs reduction on classification and 1.2 higher mAP on detection under comparable FLOPs, as compared to ViTs with vanilla softmax-based at-tentions. Project page is available at here. 

   more » « less
2. ViTCoD: Vision Transformer Acceleration via Dedicated Algorithm and Accelerator Co-Design

   https://doi.org/10.1109/HPCA56546.2023.10071027  

   You, Haoran ; Sun, Zhanyi ; Shi, Huihong ; Yu, Zhongzhi ; Zhao, Yang ; Zhang, Yongan ; Li, Chaojian ; Li, Baopu ; Lin, Yingyan ( February 2023 , 2023 IEEE International Symposium on High-Performance Computer Architecture (HPCA))

   Vision Transformers (ViTs) have achieved state-of-the-art performance on various vision tasks. However, ViTs’ self-attention module is still arguably a major bottleneck, limiting their achievable hardware efficiency and more extensive applications to resource constrained platforms. Meanwhile, existing accelerators dedicated to NLP Transformers are not optimal for ViTs. This is because there is a large difference between ViTs and Transformers for natural language processing (NLP) tasks: ViTs have a relatively fixed number of input tokens, whose attention maps can be pruned by up to 90% even with fixed sparse patterns, without severely hurting the model accuracy (e.g., <=1.5% under 90% pruning ratio); while NLP Transformers need to handle input sequences of varying numbers of tokens and rely on on-the-fly predictions of dynamic sparse attention patterns for each input to achieve a decent sparsity (e.g., >=50%). To this end, we propose a dedicated algorithm and accelerator co-design framework dubbed ViTCoD for accelerating ViTs. Specifically, on the algorithm level, ViTCoD prunes and polarizes the attention maps to have either denser or sparser fixed patterns for regularizing two levels of workloads without hurting the accuracy, largely reducing the attention computations while leaving room for alleviating the remaining dominant data movements; on top of that, we further integrate a lightweight and learnable auto-encoder module to enable trading the dominant high-cost data movements for lower-cost computations. On the hardware level, we develop a dedicated accelerator to simultaneously coordinate the aforementioned enforced denser and sparser workloads for boosted hardware utilization, while integrating on-chip encoder and decoder engines to leverage ViTCoD’s algorithm pipeline for much reduced data movements. Extensive experiments and ablation studies validate that ViTCoD largely reduces the dominant data movement costs, achieving speedups of up to 235.3×, 142.9×, 86.0×, 10.1×, and 6.8× over general computing platforms CPUs, EdgeGPUs, GPUs, and prior-art Transformer accelerators SpAtten and Sanger under an attention sparsity of 90%, respectively. Our code implementation is available at https://github.com/GATECH-EIC/ViTCoD. 

   more » « less
3. E2-train: Training state-of-the-art CNNs with over 80% energy savings

   Wang, Yue ; Jiang, Ziyu ; Chen, Xiaohan ; Xu, Pengfei ; Zhao, Yang ; Lin, Yingyan ; Wang, Zhangyang ( December 2019 , Advances in Neural Information Processing Systems 32 (NIPS 2019))

   Convolutional neural networks (CNNs) have been increasingly deployed to edge devices. Hence, many efforts have been made towards efficient CNN inference on resource-constrained platforms. This paper attempts to explore an orthogonal direction: how to conduct more energy-efficient training of CNNs, so as to enable on-device training? We strive to reduce the energy cost during training, by dropping unnecessary computations, from three complementary levels: stochastic mini-batch dropping on the data level; selective layer update on the model level; and sign prediction for low-cost, low-precision back-propagation, on the algorithm level. Extensive simulations and ablation studies, with real energy measurements from an FPGA board, confirm the superiority of our proposed strategies and demonstrate remarkable energy savings for training. For example, when training ResNet-74 on CIFAR-10, we achieve aggressive energy savings of >90% and >60%, while incurring a top-1 accuracy loss of only about 2% and 1.2%, respectively. When training ResNet-110 on CIFAR-100, an over 84% training energy saving is achieved without degrading inference accuracy. 

   more » « less
4. MEST: Accurate and Fast Memory-Economic Sparse Training Framework on the Edge

   Yuan, Geng ; Ma, Xiaolong ; Niu, Wei ; Li, Zhengang ; Kong, Zhenglun ; Liu, Ning ; Gong, Yifan ; Zhan, Zheng ; He, Chaoyang ; Jin, Qing ; et al ( January 2021 , Advances in Neural Information Processing Systems 34 (NeurIPS 2021))

   Recently, a new trend of exploring sparsity for accelerating neural network training has emerged, embracing the paradigm of training on the edge. This paper proposes a novel Memory-Economic Sparse Training (MEST) framework targeting for accurate and fast execution on edge devices. The proposed MEST framework consists of enhancements by Elastic Mutation (EM) and Soft Memory Bound (&S) that ensure superior accuracy at high sparsity ratios. Different from the existing works for sparse training, this current work reveals the importance of sparsity schemes on the performance of sparse training in terms of accuracy as well as training speed on real edge devices. On top of that, the paper proposes to employ data efficiency for further acceleration of sparse training. Our results suggest that unforgettable examples can be identified in-situ even during the dynamic exploration of sparsity masks in the sparse training process, and therefore can be removed for further training speedup on edge devices. Comparing with state-of-the-art (SOTA) works on accuracy, our MEST increases Top-1 accuracy significantly on ImageNet when using the same unstructured sparsity scheme. Systematical evaluation on accuracy, training speed, and memory footprint are conducted, where the proposed MEST framework consistently outperforms representative SOTA works. A reviewer strongly against our work based on his false assumptions and misunderstandings. On top of the previous submission, we employ data efficiency for further acceleration of sparse training. And we explore the impact of model sparsity, sparsity schemes, and sparse training algorithms on the number of removable training examples. Our codes are publicly available at: https://github.com/boone891214/MEST. 

   more » « less
5. The Temple University Digital Pathology Corpus: The Breast Tissue Subset

   https://doi.org/10.1109/SPMB52430.2021.9672275  

   Wevodau, Z. ; Doshna, B. ; Jhala, N. ; Akhtar, I. ; Obeid, I. ; Picone, J. ( December 2021 , Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB))

   Obeid, I. (Ed.)

   The Neural Engineering Data Consortium (NEDC) is developing the Temple University Digital Pathology Corpus (TUDP), an open source database of high-resolution images from scanned pathology samples [1], as part of its National Science Foundation-funded Major Research Instrumentation grant titled “MRI: High Performance Digital Pathology Using Big Data and Machine Learning” [2]. The long-term goal of this project is to release one million images. We have currently scanned over 100,000 images and are in the process of annotating breast tissue data for our first official corpus release, v1.0.0. This release contains 3,505 annotated images of breast tissue including 74 patients with cancerous diagnoses (out of a total of 296 patients). In this poster, we will present an analysis of this corpus and discuss the challenges we have faced in efficiently producing high quality annotations of breast tissue. It is well known that state of the art algorithms in machine learning require vast amounts of data. Fields such as speech recognition [3], image recognition [4] and text processing [5] are able to deliver impressive performance with complex deep learning models because they have developed large corpora to support training of extremely high-dimensional models (e.g., billions of parameters). Other fields that do not have access to such data resources must rely on techniques in which existing models can be adapted to new datasets [6]. A preliminary version of this breast corpus release was tested in a pilot study using a baseline machine learning system, ResNet18 [7], that leverages several open-source Python tools. The pilot corpus was divided into three sets: train, development, and evaluation. Portions of these slides were manually annotated [1] using the nine labels in Table 1 [8] to identify five to ten examples of pathological features on each slide. Not every pathological feature is annotated, meaning excluded areas can include focuses particular to these labels that are not used for training. A summary of the number of patches within each label is given in Table 2. To maintain a balanced training set, 1,000 patches of each label were used to train the machine learning model. Throughout all sets, only annotated patches were involved in model development. The performance of this model in identifying all the patches in the evaluation set can be seen in the confusion matrix of classification accuracy in Table 3. The highest performing labels were background, 97% correct identification, and artifact, 76% correct identification. A correlation exists between labels with more than 6,000 development patches and accurate performance on the evaluation set. Additionally, these results indicated a need to further refine the annotation of invasive ductal carcinoma (“indc”), inflammation (“infl”), nonneoplastic features (“nneo”), normal (“norm”) and suspicious (“susp”). This pilot experiment motivated changes to the corpus that will be discussed in detail in this poster presentation. To increase the accuracy of the machine learning model, we modified how we addressed underperforming labels. One common source of error arose with how non-background labels were converted into patches. Large areas of background within other labels were isolated within a patch resulting in connective tissue misrepresenting a non-background label. In response, the annotation overlay margins were revised to exclude benign connective tissue in non-background labels. Corresponding patient reports and supporting immunohistochemical stains further guided annotation reviews. The microscopic diagnoses given by the primary pathologist in these reports detail the pathological findings within each tissue site, but not within each specific slide. The microscopic diagnoses informed revisions specifically targeting annotated regions classified as cancerous, ensuring that the labels “indc” and “dcis” were used only in situations where a micropathologist diagnosed it as such. Further differentiation of cancerous and precancerous labels, as well as the location of their focus on a slide, could be accomplished with supplemental immunohistochemically (IHC) stained slides. When distinguishing whether a focus is a nonneoplastic feature versus a cancerous growth, pathologists employ antigen targeting stains to the tissue in question to confirm the diagnosis. For example, a nonneoplastic feature of usual ductal hyperplasia will display diffuse staining for cytokeratin 5 (CK5) and no diffuse staining for estrogen receptor (ER), while a cancerous growth of ductal carcinoma in situ will have negative or focally positive staining for CK5 and diffuse staining for ER [9]. Many tissue samples contain cancerous and non-cancerous features with morphological overlaps that cause variability between annotators. The informative fields IHC slides provide could play an integral role in machine model pathology diagnostics. Following the revisions made on all the annotations, a second experiment was run using ResNet18. Compared to the pilot study, an increase of model prediction accuracy was seen for the labels indc, infl, nneo, norm, and null. This increase is correlated with an increase in annotated area and annotation accuracy. Model performance in identifying the suspicious label decreased by 25% due to the decrease of 57% in the total annotated area described by this label. A summary of the model performance is given in Table 4, which shows the new prediction accuracy and the absolute change in error rate compared to Table 3. The breast tissue subset we are developing includes 3,505 annotated breast pathology slides from 296 patients. The average size of a scanned SVS file is 363 MB. The annotations are stored in an XML format. A CSV version of the annotation file is also available which provides a flat, or simple, annotation that is easy for machine learning researchers to access and interface to their systems. Each patient is identified by an anonymized medical reference number. Within each patient’s directory, one or more sessions are identified, also anonymized to the first of the month in which the sample was taken. These sessions are broken into groupings of tissue taken on that date (in this case, breast tissue). A deidentified patient report stored as a flat text file is also available. Within these slides there are a total of 16,971 total annotated regions with an average of 4.84 annotations per slide. Among those annotations, 8,035 are non-cancerous (normal, background, null, and artifact,) 6,222 are carcinogenic signs (inflammation, nonneoplastic and suspicious,) and 2,714 are cancerous labels (ductal carcinoma in situ and invasive ductal carcinoma in situ.) The individual patients are split up into three sets: train, development, and evaluation. Of the 74 cancerous patients, 20 were allotted for both the development and evaluation sets, while the remain 34 were allotted for train. The remaining 222 patients were split up to preserve the overall distribution of labels within the corpus. This was done in hope of creating control sets for comparable studies. Overall, the development and evaluation sets each have 80 patients, while the training set has 136 patients. In a related component of this project, slides from the Fox Chase Cancer Center (FCCC) Biosample Repository (https://www.foxchase.org/research/facilities/genetic-research-facilities/biosample-repository -facility) are being digitized in addition to slides provided by Temple University Hospital. This data includes 18 different types of tissue including approximately 38.5% urinary tissue and 16.5% gynecological tissue. These slides and the metadata provided with them are already anonymized and include diagnoses in a spreadsheet with sample and patient ID. We plan to release over 13,000 unannotated slides from the FCCC Corpus simultaneously with v1.0.0 of TUDP. Details of this release will also be discussed in this poster. Few digitally annotated databases of pathology samples like TUDP exist due to the extensive data collection and processing required. The breast corpus subset should be released by November 2021. By December 2021 we should also release the unannotated FCCC data. We are currently annotating urinary tract data as well. We expect to release about 5,600 processed TUH slides in this subset. We have an additional 53,000 unprocessed TUH slides digitized. Corpora of this size will stimulate the development of a new generation of deep learning technology. In clinical settings where resources are limited, an assistive diagnoses model could support pathologists’ workload and even help prioritize suspected cancerous cases. ACKNOWLEDGMENTS This material is supported by the National Science Foundation under grants nos. CNS-1726188 and 1925494. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. REFERENCES [1] N. Shawki et al., “The Temple University Digital Pathology Corpus,” in Signal Processing in Medicine and Biology: Emerging Trends in Research and Applications, 1st ed., I. Obeid, I. Selesnick, and J. Picone, Eds. New York City, New York, USA: Springer, 2020, pp. 67 104. https://www.springer.com/gp/book/9783030368432. [2] J. Picone, T. Farkas, I. Obeid, and Y. Persidsky, “MRI: High Performance Digital Pathology Using Big Data and Machine Learning.” Major Research Instrumentation (MRI), Division of Computer and Network Systems, Award No. 1726188, January 1, 2018 – December 31, 2021. https://www. isip.piconepress.com/projects/nsf_dpath/. [3] A. Gulati et al., “Conformer: Convolution-augmented Transformer for Speech Recognition,” in Proceedings of the Annual Conference of the International Speech Communication Association (INTERSPEECH), 2020, pp. 5036-5040. https://doi.org/10.21437/interspeech.2020-3015. [4] C.-J. Wu et al., “Machine Learning at Facebook: Understanding Inference at the Edge,” in Proceedings of the IEEE International Symposium on High Performance Computer Architecture (HPCA), 2019, pp. 331–344. https://ieeexplore.ieee.org/document/8675201. [5] I. Caswell and B. Liang, “Recent Advances in Google Translate,” Google AI Blog: The latest from Google Research, 2020. [Online]. Available: https://ai.googleblog.com/2020/06/recent-advances-in-google-translate.html. [Accessed: 01-Aug-2021]. [6] V. Khalkhali, N. Shawki, V. Shah, M. Golmohammadi, I. Obeid, and J. Picone, “Low Latency Real-Time Seizure Detection Using Transfer Deep Learning,” in Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB), 2021, pp. 1 7. https://www.isip. piconepress.com/publications/conference_proceedings/2021/ieee_spmb/eeg_transfer_learning/. [7] J. Picone, T. Farkas, I. Obeid, and Y. Persidsky, “MRI: High Performance Digital Pathology Using Big Data and Machine Learning,” Philadelphia, Pennsylvania, USA, 2020. https://www.isip.piconepress.com/publications/reports/2020/nsf/mri_dpath/. [8] I. Hunt, S. Husain, J. Simons, I. Obeid, and J. Picone, “Recent Advances in the Temple University Digital Pathology Corpus,” in Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB), 2019, pp. 1–4. https://ieeexplore.ieee.org/document/9037859. [9] A. P. Martinez, C. Cohen, K. Z. Hanley, and X. (Bill) Li, “Estrogen Receptor and Cytokeratin 5 Are Reliable Markers to Separate Usual Ductal Hyperplasia From Atypical Ductal Hyperplasia and Low-Grade Ductal Carcinoma In Situ,” Arch. Pathol. Lab. Med., vol. 140, no. 7, pp. 686–689, Apr. 2016. https://doi.org/10.5858/arpa.2015-0238-OA. 

   more » « less