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The stochastic nature of iterative optimization heuristics leads to inherently noisy performance measurements. Since these measurements are often gathered once and then used repeatedly, the number of collected samples will have a significant impact on the reliability of algorithm comparisons. We show that care should be taken when making decisions based on limited data. Particularly, we show that the number of runs used in many benchmarking studies, e.g., the default value of 15 suggested by the COCO environment, can be insufficient to reliably rank algorithms on well-known numerical optimization benchmarks. Additionally, methods for automated algorithm configuration are sensitive to insufficient sample sizes. This may result in the configurator choosing a `lucky' but poor-performing configuration despite exploring better ones. We show that relying on mean performance values, as many configurators do, can require a large number of runs to provide accurate comparisons between the considered configurations. Common statistical tests can greatly improve the situation in most cases but not always. We show examples of performance losses of more than 20%, even when using statistical races to dynamically adjust the number of runs, as done by irace. Our results underline the importance of appropriately considering the statistical distribution of performance values.

The rapid growth of biomedical literature poses a significant challenge for curation and interpretation. This has become more evident during the COVID-19 pandemic. LitCovid, a literature database of COVID-19 related papers in PubMed, has accumulated over 180,000 articles with millions of accesses. Approximately 10,000 new articles are added to LitCovid every month. A main curation task in LitCovid is topic annotation where an article is assigned with up to eight topics, e.g., Treatment and Diagnosis. The annotated topics have been widely used both in LitCovid (e.g., accounting for ~18% of total uses) and downstream studies such as network generation. However, it has been a primary curation bottleneck due to the nature of the task and the rapid literature growth. This study proposes LITMC-BERT, a transformer-based multi-label classification method in biomedical literature. It uses a shared transformer backbone for all the labels while also captures label-specific features and the correlations between label pairs. We compare LITMC-BERT with three baseline models on two datasets. Its micro-F1 and instance-based F1 are 5% and 4% higher than the current best results, respectively, and only requires ~18% of the inference time than the Binary BERT baseline. The related datasets and models are available via //github.com/ncbi/ml-transformer.

Distributed machine learning (ML) can bring more computational resources to bear than single-machine learning, thus enabling reductions in training time. Distributed learning partitions models and data over many machines, allowing model and dataset sizes beyond the available compute power and memory of a single machine. In practice though, distributed ML is challenging when distribution is mandatory, rather than chosen by the practitioner. In such scenarios, data could unavoidably be separated among workers due to limited memory capacity per worker or even because of data privacy issues. There, existing distributed methods will utterly fail due to dominant transfer costs across workers, or do not even apply. We propose a new approach to distributed fully connected neural network learning, called independent subnet training (IST), to handle these cases. In IST, the original network is decomposed into a set of narrow subnetworks with the same depth. These subnetworks are then trained locally before parameters are exchanged to produce new subnets and the training cycle repeats. Such a naturally "model parallel" approach limits memory usage by storing only a portion of network parameters on each device. Additionally, no requirements exist for sharing data between workers (i.e., subnet training is local and independent) and communication volume and frequency are reduced by decomposing the original network into independent subnets. These properties of IST can cope with issues due to distributed data, slow interconnects, or limited device memory, making IST a suitable approach for cases of mandatory distribution. We show experimentally that IST results in training times that are much lower than common distributed learning approaches.

With the advent of open source software, a veritable treasure trove of previously proprietary software development data was made available. This opened the field of empirical software engineering research to anyone in academia. Data that is mined from software projects, however, requires extensive processing and needs to be handled with utmost care to ensure valid conclusions. Since the software development practices and tools have changed over two decades, we aim to understand the state-of-the-art research workflows and to highlight potential challenges. We employ a systematic literature review by sampling over one thousand papers from leading conferences and by analyzing the 286 most relevant papers from the perspective of data workflows, methodologies, reproducibility, and tools. We found that an important part of the research workflow involving dataset selection was particularly problematic, which raises questions about the generality of the results in existing literature. Furthermore, we found a considerable number of papers provide little or no reproducibility instructions -- a substantial deficiency for a data-intensive field. In fact, 33% of papers provide no information on how their data was retrieved. Based on these findings, we propose ways to address these shortcomings via existing tools and also provide recommendations to improve research workflows and the reproducibility of research.

Despite its technological benefits, Internet of Things (IoT) has cyber weaknesses due to the vulnerabilities in the wireless medium. Machine learning (ML)-based methods are widely used against cyber threats in IoT networks with promising performance. Advanced persistent threat (APT) is prominent for cybercriminals to compromise networks, and it is crucial to long-term and harmful characteristics. However, it is difficult to apply ML-based approaches to identify APT attacks to obtain a promising detection performance due to an extremely small percentage among normal traffic. There are limited surveys to fully investigate APT attacks in IoT networks due to the lack of public datasets with all types of APT attacks. It is worth to bridge the state-of-the-art in network attack detection with APT attack detection in a comprehensive review article. This survey article reviews the security challenges in IoT networks and presents the well-known attacks, APT attacks, and threat models in IoT systems. Meanwhile, signature-based, anomaly-based, and hybrid intrusion detection systems are summarized for IoT networks. The article highlights statistical insights regarding frequently applied ML-based methods against network intrusion alongside the number of attacks types detected. Finally, open issues and challenges for common network intrusion and APT attacks are presented for future research.

Modern software development is based on a series of rapid incremental changes collaboratively made to large source code repositories by developers with varying experience and expertise levels. The ZeroIn project is aimed at analyzing the metadata of these dynamic phenomena, including the data on repositories, commits, and developers, to rapidly and accurately mark the quality of commits as they arrive at the repositories. In this context, the present article presents a characterization of the software development metadata in terms of distributions of data that best captures the trends in the datasets. Multiple datasets are analyzed for this purpose, including Stack Overflow on developers' features and GitHub data on over 452 million repositories with 16 million commits. This characterization is intended to make it possible to generate multiple synthetic datasets that can be used in training and testing novel machine learning-based solutions to improve the reliability of software even as it evolves. It is also aimed at serving the development process to exploit the latent correlations among many key feature vectors across the aggregate space of repositories and developers. The data characterization of this article is designed to feed into the machine learning components of ZeroIn, including the application of binary classifiers for early flagging of buggy software commits and the development of graph-based learning methods to exploit sparse connectivity among the sets of repositories, commits, and developers.

Object detection and tracking in videos represent essential and computationally demanding building blocks for current and future visual perception systems. In order to reduce the efficiency gap between available methods and computational requirements of real-world applications, we propose to re-think one of the most successful methods for image object detection, Faster R-CNN, and extend it to the video domain. Specifically, we extend the detection framework to learn instance-level embeddings which prove beneficial for data association and re-identification purposes. Focusing on the computational aspects of detection and tracking, our proposed method reaches a very high computational efficiency necessary for relevant applications, while still managing to compete with recent and state-of-the-art methods as shown in the experiments we conduct on standard object tracking benchmarks

Background. From information theory, surprisal is a measurement of how unexpected an event is. Statistical language models provide a probabilistic approximation of natural languages, and because surprisal is constructed with the probability of an event occuring, it is therefore possible to determine the surprisal associated with English sentences. The issues and pull requests of software repository issue trackers give insight into the development process and likely contain the surprising events of this process. Objective. Prior works have identified that unusual events in software repositories are of interest to developers, and use simple code metrics-based methods for detecting them. In this study we will propose a new method for unusual event detection in software repositories using surprisal. With the ability to find surprising issues and pull requests, we intend to further analyse them to determine if they actually hold importance in a repository, or if they pose a significant challenge to address. If it is possible to find bad surprises early, or before they cause additional troubles, it is plausible that effort, cost and time will be saved as a result. Method. After extracting the issues and pull requests from 5000 of the most popular software repositories on GitHub, we will train a language model to represent these issues. We will measure their perceived importance in the repository, measure their resolution difficulty using several analogues, measure the surprisal of each, and finally generate inferential statistics to describe any correlations.

Correlation acts as a critical role in the tracking field, especially in recent popular Siamese-based trackers. The correlation operation is a simple fusion manner to consider the similarity between the template and the search region. However, the correlation operation itself is a local linear matching process, leading to lose semantic information and fall into local optimum easily, which may be the bottleneck of designing high-accuracy tracking algorithms. Is there any better feature fusion method than correlation? To address this issue, inspired by Transformer, this work presents a novel attention-based feature fusion network, which effectively combines the template and search region features solely using attention. Specifically, the proposed method includes an ego-context augment module based on self-attention and a cross-feature augment module based on cross-attention. Finally, we present a Transformer tracking (named TransT) method based on the Siamese-like feature extraction backbone, the designed attention-based fusion mechanism, and the classification and regression head. Experiments show that our TransT achieves very promising results on six challenging datasets, especially on large-scale LaSOT, TrackingNet, and GOT-10k benchmarks. Our tracker runs at approximatively 50 fps on GPU. Code and models are available at //github.com/chenxin-dlut/TransT.

Since deep neural networks were developed, they have made huge contributions to everyday lives. Machine learning provides more rational advice than humans are capable of in almost every aspect of daily life. However, despite this achievement, the design and training of neural networks are still challenging and unpredictable procedures. To lower the technical thresholds for common users, automated hyper-parameter optimization (HPO) has become a popular topic in both academic and industrial areas. This paper provides a review of the most essential topics on HPO. The first section introduces the key hyper-parameters related to model training and structure, and discusses their importance and methods to define the value range. Then, the research focuses on major optimization algorithms and their applicability, covering their efficiency and accuracy especially for deep learning networks. This study next reviews major services and toolkits for HPO, comparing their support for state-of-the-art searching algorithms, feasibility with major deep learning frameworks, and extensibility for new modules designed by users. The paper concludes with problems that exist when HPO is applied to deep learning, a comparison between optimization algorithms, and prominent approaches for model evaluation with limited computational resources.