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BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets

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Nature methods 2023年第6期20卷 824-835页

作者： Linus Manubens-Gil Zhi Zhou Hanbo Chen Arvind Ramanathan Xiaoxiao Liu Yufeng Liu Alessandro Bria Todd Gillette Zongcai Ruan Jian Yang Miroslav Radojević Ting Zhao Li Cheng Lei Qu Siqi Liu Kristofer E Bouchard Lin Gu Weidong Cai Shuiwang Ji Badrinath Roysam Ching-Wei Wang Hongchuan Yu Amos Sironi Daniel Maxim Iascone Jie Zhou Erhan Bas Eduardo Conde-Sousa Paulo Aguiar Xiang Li Yujie Li Sumit Nanda Yuan Wang Leila Muresan Pascal Fua Bing Ye Hai-Yan He Jochen F Staiger Manuel Peter Daniel N Cox Michel Simonneau Marcel Oberlaender Gregory Jefferis Kei Ito Paloma Gonzalez-Bellido Jinhyun Kim Edwin Rubel Hollis T Cline Hongkui Zeng Aljoscha Nern Ann-Shyn Chiang Jianhua Yao Jane Roskams Rick Livesey Janine Stevens Tianming Liu Chinh Dang Yike Guo Ning Zhong Georgia Tourassi Sean Hill Michael Hawrylycz Christof Koch Erik Meijering Giorgio A Ascoli Hanchuan Peng Institute for Brain and Intelligence Southeast University Nanjing China. Microsoft Corporation Redmond WA USA. Tencent AI Lab Bellevue WA USA. Computing Environment and Life Sciences Directorate Argonne National Laboratory Lemont IL USA. Kaya Medical Seattle WA USA. University of Cassino and Southern Lazio Cassino Italy. Center for Neural Informatics Structures and Plasticity Krasnow Institute for Advanced Study George Mason University Fairfax VA USA. Faculty of Information Technology Beijing University of Technology Beijing China. Beijing International Collaboration Base on Brain Informatics and Wisdom Services Beijing China. Nuctech Netherlands Rotterdam the Netherlands. Janelia Research Campus Howard Hughes Medical Institute Ashburn VA USA. Department of Electrical and Computer Engineering University of Alberta Edmonton Alberta Canada. Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing Anhui University Hefei China. Paige AI New York NY USA. Scientific Data Division and Biological Systems and Engineering Division Lawrence Berkeley National Lab Berkeley CA USA. Helen Wills Neuroscience Institute and Redwood Center for Theoretical Neuroscience UC Berkeley Berkeley CA USA. RIKEN AIP Tokyo Japan. Research Center for Advanced Science and Technology (RCAST) The University of Tokyo Tokyo Japan. School of Computer Science University of Sydney Sydney New South Wales Australia. Texas A&M University College Station TX USA. Cullen College of Engineering University of Houston Houston TX USA. Graduate Institute of Biomedical Engineering National Taiwan University of Science and Technology Taipei Taiwan. National Centre for Computer Animation Bournemouth University Poole UK. PROPHESEE Paris France. Department of Neuroscience Columbia University New York NY USA. Mortimer B. Zuckerman Mind Brain Behavior Institute Columbia University New York NY USA. Department of Computer Science Northern Illinois Universit

BigNeuron is an open community bench-testing platform with the goal of setting open standards for accurate and fast automatic neuron tracing. We gathered a diverse set of image volumes across several species that is representative of the data obtained in many neuroscience laboratories interested in neuron tracing. Here, we report generated gold standard manual annotations for a subset of the available imaging datasets and quantified tracing quality for 35 automatic tracing algorithms. The goal of generating such a hand-curated diverse dataset is to advance the development of tracing algorithms and enable generalizable benchmarking. Together with image quality features, we pooled the data in an interactive web application that enables users and developers to perform principal component analysis, t-distributed stochastic neighbor embedding, correlation and clustering, visualization of imaging and tracing data, and benchmarking of automatic tracing algorithms in user-defined data subsets. The image quality metrics explain most of the variance in the data, followed by neuromorphological features related to neuron size. We observed that diverse algorithms can provide complementary information to obtain accurate results and developed a method to iteratively combine methods and generate consensus reconstructions. The consensus trees obtained provide estimates of the neuron structure ground truth that typically outperform single algorithms in noisy datasets. However, specific algorithms may outperform the consensus tree strategy in specific imaging conditions. Finally, to aid users in predicting the most accurate automatic tracing results without manual annotations for comparison, we used support vector machine regression to predict reconstruction quality given an image volume and a set of automatic tracings.

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Learning from learning machines: A new generation of AI technology to meet the needs of science

arXiv

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arXiv 2021年

作者： Pion-Tonachini, Luca Bouchard, Kristofer Martin, Hector Garcia Peisert, Sean Holtz, W. Bradley Aswani, Anil Dwivedi, Dipankar Wainwright, Haruko Pilania, Ghanshyam Nachman, Benjamin Marrone, Babetta L. Falco, Nicola Prabhat Arnold, Daniel Wolf-Yadlin, Alejandro Powers, Sarah Climer, Sharlee Jackson, Quinn Carlson, Ty Sohn, Michael Zwart, Petrus Kumar, Neeraj Justice, Amy Tomlin, Claire Jacobson, Daniel Micklem, Gos Gkoutos, Georgios V. Bickel, Peter J. Cazier, Jean-Baptiste Müller, Juliane Webb-Robertson, Bobbie-Jo Stevens, Rick Anderson, Mark Kreutz-Delgado, Ken Mahoney, Michael W. Brown, James B. Pattern Computer Inc. Friday HarborWA98250 United States Biosciences Area Lawrence Berkeley National Lab BerkeleyCA94803 United States Computational Research Division Lawrence Berkeley National Lab BerkeleyCA94720 United States Helen Wils Neuroscience Institute Redwood Center for Theoretical Neuroscience Uc Berkeley BerkeleyCA94720 United States Doe Agile BioFoundry Lawrence Berkeley National Laboratory BerkeleyCA94803 United States Joint BioEnergy Institute Lawrence Berkeley National Laboratory BerkeleyCA94803 United States Bcam Basque Center for Applied Mathematics Bilbao48009 Spain Computer Science University of California Davis DavisCA95616 United States Cenic La MiradaCA90638 United States Health Informatics University of California Davis School of Medicine SacramentoCA95817 United States Berkeley Institute for Data Science University of California Berkeley BerkeleyCA94720 United States Industrial Engineering and Operations Research University of California Berkeley BerkeleyCA94720 United States Environmental & Earth Sciences Area Lawrence Berkeley National Laboratory BerkeleyCA94803 United States Nuclear Engineering University of California Berkeley BerkeleyCA94720 United States Materials Science and Technology Division Los Alamos National Laboratory Los AlamosNM87545 United States Physics Division Lawrence Berkeley National Lab BerkeleyCA94720 United States Bioscience Division Los Alamos National Laboratory Los AlamosNM87545 United States Earth and Environmental Sciences Area Lawrence Berkeley National Lab BerkeleyCA94803 United States Energy Technologies Area Lawrence Berkeley National Lab BerkeleyCA94803 United States Computing and Computational Sciences Oak Ridge National Laboratory Oak RidgeTN37831 United States Industrial & Systems Engineering The University of Tennessee KnoxvilleTN37996 United States Department of Computer Science University of Missouri-Saint Louis St. LouisMO63121 United

We outline emerging opportunities and challenges to enhance the utility of AI for scientific discovery. The distinct goals of AI for industry versus the goals of AI for science create tension between identifying patterns in data versus discovering patterns in the world from data. If we address the fundamental challenges associated with "bridging the gap" between domain-driven scientific models and data-driven AI learning machines, then we expect that these AI models can transform hypothesis generation, scientific discovery, and the scientific process itself. © 2021, CC BY.

关键词： Learning systems

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Learn2Reg: comprehensive multi-task medical image registration challenge, dataset and evaluation in the era of deep learning

arXiv

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arXiv 2021年

作者： Hering, Alessa Hansen, Lasse Mok, Tony C.W. Chung, Albert C.S. Siebert, Hanna Häger, Stephanie Lange, Annkristin Kuckertz, Sven Heldmann, Stefan Shao, Wei Vesal, Sulaiman Rusu, Mirabela Sonn, Geoffrey Estienne, Théo Vakalopoulou, Maria Han, Luyi Huang, Yunzhi Yap, Pew-Thian Brudfors, Mikael Balbastre, Yaël Joutard, Samuel Modat, Marc Lifshitz, Gal Raviv, Dan Lv, Jinxin Li, Qiang Jaouen, Vincent Visvikis, Dimitris Fourcade, Constance Rubeaux, Mathieu Pan, Wentao Xu, Zhe Jian, Bailiang De Benetti, Francesca Wodzinski, Marek Gunnarsson, Niklas Sjölund, Jens Grzech, Daniel Qiu, Huaqi Li, Zeju Thorley, Alexander Duan, Jinming Großbröhmer, Christoph Hoopes, Andrew Reinertsen, Ingerid Xiao, Yiming Landman, Bennett Huo, Yuankai Murphy, Keelin Lessmann, Nikolas van Ginneken, Bram Dalca, Adrian V. Heinrich, Mattias P. Institute of Medical Informatics Universität zu Lübeck Ratzeburger Allee 160 Lübeck23562 Germany Fraunhofer MEVIS Institute for Digital Medicine Lübeck23562 Germany Department of Radiology and Nuclear Medicine Radboud University Medical Center GA Nijmegen6525 Netherlands The Institute of Medical Informatics Universität zu Lübeck Lübeck23562 Germany The Department of Computer Science and Engineering The Hong Kong University of Science and Technology Hong Kong The Fraunhofer MEVIS Institute for Digital Medicine Lübeck23562 Germany The Department of Radiology Stanford University StanfordCA94305 United States The Department of Urology Stanford University StanfordCA94305 United States The Université Paris-Saclay CentraleSupélec Mathématiques et Informatique pour la Complexité et les Systèmes Inria Saclay Gif-sur-Yvette 91190 France Université Paris-Saclay Institut Gustave Roussy Inserm Radiothérapie Moléculaire et Innovation Thérapeutique Villejuif94800 France The Université Paris-Saclay CentraleSupélec Mathématiques et Informatique pour la Complexité et les Systèmes Inria Saclay Gif-sur-Yvette91190 France The Department of Radiology and Nuclear Medicine Radboud University Medical Center Nijmegen6525 GA Netherlands The School of Automation Nanjing University of Information Science and Technology Nanjing210044 China The School of Biomedical Engineering and Imaging Sciences King’s College London London United Kingdom The Athinoula A. Martinos Center for Biomedical Imaging Massachusetts General Hospital United States Harvard Medical School Boston United States The King’s College London United Kingdom The Tel Aviv University The Britton Chance Center for Biomedical Photonics Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology Hubei Wuhan430074 China MoE Key Laboratory for Biomedical Photonics Collaborative Innovation Center for Biomedical Engineering School of Engineering Sciences Huazhong University of Sci

Image registration is a fundamental medical image analysis task, and a wide variety of approaches have been proposed. However, only a few studies have comprehensively compared medical image registration approaches on a wide range of clinically relevant tasks. This limits the development of registration methods, the adoption of research advances into practice, and a fair benchmark across competing approaches. The Learn2Reg challenge addresses these limitations by providing a multi-task medical image registration data set for comprehensive characterisation of deformable registration algorithms. A continuous evaluation will be possible at https://***. Learn2Reg covers a wide range of anatomies (brain, abdomen, and thorax), modalities (ultrasound, CT, MR), availability of annotations, as well as intra- and inter-patient registration evaluation. We established an easily accessible framework for training and validation of 3D registration methods, which enabled the compilation of results of over 65 individual method submissions from more than 20 unique teams. We used a complementary set of metrics, including robustness, accuracy, plausibility, and runtime, enabling unique insight into the current state-of-the-art of medical image registration. This paper describes datasets, tasks, evaluation methods and results of the challenge, as well as results of further analysis of transferability to new datasets, the importance of label supervision, and resulting bias. While no single approach worked best across all tasks, many methodological aspects could be identified that push the performance of medical image registration to new state-of-the-art performance. Furthermore, we demystified the common belief that conventional registration methods have to be much slower than deep-learning-based methods. © 2021, CC BY.

关键词： Image registration

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Noise subtraction from KAGRA O3GK data using Independent Component Analysis

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Classical and Quantum Gravity 2023年第8期40卷 085015-085015页

作者： H Abe T Akutsu M Ando A Araya N Aritomi H Asada Y Aso S Bae Y Bae R Bajpai K Cannon Z Cao E Capocasa M Chan C Chen D Chen K Chen Y Chen C-Y Chiang Y-K Chu S Eguchi M Eisenmann Y Enomoto R Flaminio H K Fong Y Fujii Y Fujikawa Y Fujimoto I Fukunaga D Gao G-G Ge S Ha I P W Hadiputrawan S Haino W-B Han K Hasegawa K Hattori H Hayakawa K Hayama Y Himemoto N Hirata C Hirose T-C Ho B-H Hsieh H-F Hsieh C Hsiung H-Y Huang P Huang Y-C Huang Y-J Huang D C Y Hui S Ide K Inayoshi Y Inoue K Ito Y Itoh C Jeon H-B Jin K Jung P Jung K Kaihotsu T Kajita M Kakizaki M Kamiizumi N Kanda T Kato K Kawaguchi C Kim J Kim J C Kim Y-M Kim N Kimura T Kiyota Y Kobayashi K Kohri K Kokeyama A K H Kong N Koyama C Kozakai J Kume Y Kuromiya S Kuroyanagi K Kwak E Lee H W Lee R Lee M Leonardi K L Li P Li L C -C Lin C-Y Lin E T Lin F-K Lin F-L Lin H L Lin G C Liu L-W Luo M Ma’arif E Majorana Y Michimura N Mio O Miyakawa K Miyo S Miyoki Y Mori S Morisaki N Morisue Y Moriwaki K Nagano K Nakamura H Nakano M Nakano Y Nakayama T Narikawa L Naticchioni L Nguyen Quynh W-T Ni T Nishimoto A Nishizawa S Nozaki Y Obayashi W Ogaki J J Oh K Oh M Ohashi T Ohashi M Ohkawa H Ohta Y Okutani K Oohara S Oshino S Otabe K-C Pan A Parisi J Park F E Pe na Arellano S Saha Y Saito K Sakai T Sawada Y Sekiguchi L Shao Y Shikano H Shimizu K Shimode H Shinkai T Shishido A Shoda K Somiya I Song R Sugimoto J Suresh T Suzuki H Tagoshi H Takahashi R Takahashi S Takano H Takeda M Takeda K Tanaka T Tanaka S Tanioka A Taruya T Tomaru T Tomura L Trozzo T Tsang J-S Tsao S Tsuchida T Tsutsui D Tuyenbayev N Uchikata T Uchiyama A Ueda T Uehara K Ueno G Ueshima T Ushiba M H P M van Putten J Wang T Washimi C Wu H Wu T Yamada K Yamamoto T Yamamoto K Yamashita R Yamazaki Y Yang S Yeh J Yokoyama T Yokozawa T Yoshioka H Yuzurihara S Zeidler M Zhan H Zhang Y Zhao Z-H Zhu The KAGRA Collaboration Graduate School of Science Tokyo Institute of Technology Meguro-ku Tokyo 152-8551 Japan Gravitational Wave Science Project National Astronomical Observatory of Japan (NAOJ) Mitaka City Tokyo 181-8588 Japan Advanced Technology Center National Astronomical Observatory of Japan (NAOJ) Mitaka City Tokyo 181-8588 Japan Department of Physics The University of Tokyo Bunkyo-ku Tokyo 113-0033 Japan Research Center for the Early Universe (RESCEU) The University of Tokyo Bunkyo-ku Tokyo 113-0033 Japan Earthquake Research Institute The University of Tokyo Bunkyo-ku Tokyo 113-0032 Japan Department of Mathematics and Physics Gravitational Wave Science Project Hirosaki University Hirosaki City Aomori 036-8561 Japan Kamioka Branch National Astronomical Observatory of Japan (NAOJ) Kamioka-cho Hida City Gifu 506-1205 Japan The Graduate University for Advanced Studies (SOKENDAI) Mitaka City Tokyo 181-8588 Japan Korea Institute of Science and Technology Information (KISTI) Yuseong-gu Daejeon 34141 Republic of Korea National Institute for Mathematical Sciences Yuseong-gu Daejeon 34047 Republic of Korea School of High Energy Accelerator Science The Graduate University for Advanced Studies (SOKENDAI) Tsukuba City Ibaraki 305-0801 Japan Department of Astronomy Beijing Normal University Beijing 100875 People’s Republic of China Department of Applied Physics Fukuoka University Jonan Fukuoka City Fukuoka 814-0180 Japan Department of Physics Tamkang University Danshui Dist. New Taipei City 25137 Taiwan Department of Physics and Institute of Astronomy National Tsing Hua University Hsinchu 30013 Taiwan Department of Physics Center for High Energy and High Field Physics National Central University Zhongli District Taoyuan City 32001 Taiwan Department of Physics National Tsing Hua University Hsinchu 30013 Taiwan Institute of Physics Academia Sinica Nankang Taipei 11529 Taiwan Univ. Grenoble Alpes Laboratoire d’Annecy de Physique des Particules (LAPP) Université Savoie M

During April 7–21 2020, KAGRA conducted its first scientific observation in conjunction with the GEO600 detector. The dominant noise sources during this run were found to be suspension control noise in the low-frequency range and acoustic noise in the mid-frequency range. In this study, we show that their contributions in the observational data can be reduced by a signal processing method called independent component analysis (ICA). The model of ICA is extended from that studied in the initial KAGRA data analysis to account for frequency dependence, while the linearity and stationarity of the coupling between the interferometer and the noise sources are still assumed. We identify optimal witness sensors in the application of ICA, leading to successful mitigation of these two dominant contributions. We also analyze the stability of the transfer functions for the entire two weeks of data to investigate the applicability of the proposed subtraction method in gravitational wave searches.

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Mobile application to support dyslexia diagnostic and reading practice 13

Mobile application to support dyslexia diagnostic and readin...

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13th IEEE/ACS International Conference of Computer systems and Applications, AICCSA 2016

作者： Martins, Valeria Farinazzo Lima, Thiago Sampaio, Paulo N. M. De Paiva, Marcelo Laboratório de Usabilidade Faculdade de Computação e Informática Universidade Presbiteriana Mackenzie São Paulo Brazil Graduate Program in Computing and Systems Universidade Salvador - UNIFACS Salvador Brazil Guimarães Open University of Brazil-UNIFESP Faccamp's Master Program São Paulo Brazil

ISBN: (纸本)9781509043200

The treatment of the Dyslexia Disorder requires patients to be disciplined and have a lot of reading practice so that they can reach a level of fluency and accuracy similar to people not diagnosed with this disorder. Due to cost or availability of health professionals, patients are not able, in general, to follow the treatment accordingly keeping a constant attendance. Besides, nowadays there are not many available tools to support health professionals towards dyslexia diagnosis. This paper presents an application developed for mobile devices, through which dyslexic users can practice their reading skills, turning the treatment accessible as well as helping health professionals as an auxiliary tool to diagnose their patients. This tool can be applied to support dyslexia diagnosis and to help people already diagnosed with this disorder training reading. To validate the use of this tool, the application was tested with some students of a private school in the city of São Paulo (Brazil). The results regarding usability aspects and the tool accuracy are also discussed. © 2016 IEEE.

关键词： Diagnosis

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Evaluation of an MPI-Based Implementation of the Tascell Task-Parallel Language on Massively Parallel systems

Evaluation of an MPI-Based Implementation of the Tascell Tas...

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International Conference on Parallel Processing Workshops (ICPPW)

作者： Daisuke Muraoka Masahiro Yasugi Tasuku Hiraishi Seiji Umatani Graduate School of Computer Science and Systems Engineering Kyushu Institute of Technology Department of Artificial Intelligence Kyushu Institute of Technology Academic Center for Computing and Media Studies Kyoto University Graduate School of Infomatics Kyoto University

ISBN: (纸本)9781509028269

Tascell is a task parallel language that supports distributed memory environments. The conventional implementation of Tascell realizes inter-node communication with TCP/IP communication via Tascell servers. This implementation is suitable for dynamic addition of computation nodes and wide-area distributed environments. On the other hand, in supercomputer environments, TCP/IP may not be available for inter-node communication and there may be no appropriate places for deploying Tascell servers. In this study, we have developed a server-less implementation of Tascell that realizes inter-node communication with MPI communication in order to evaluate its performance on massively parallel systems. It performs well on four Xeon Phi coprocessors (with 456 workers) and the K computer, for instance, our 19-queens solver achieves a 4615-fold speedup relative to a serial implementation with 7168 workers on the K computer. Our server-less implementation realizes deadlock freedom, although it only requires the two-sided communication paradigm and the MPI_THREAD_FUNNELED support level. On Xeon Phi coprocessors, we compare our implementation with other implementations that employ TCP/IP or the MPI_THREAD_MULTIPLE support level.

关键词： Message systems Servers System recovery Computers Coprocessors TCPIP Parallel processing

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Overview of KAGRA : Data transfer and management

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Progress of Theoretical and Experimental Physics 2023年第10期2023卷

作者： Akutsu, T Ando, M Arai, K Arai, Y Araki, S Araya, A Aritomi, N Asada, H Aso, Y Bae, S Bae, Y Baiotti, L Bajpai, R Barton, M A Cannon, K Cao, Z Capocasa, E Chan, M Chen, C Chen, K Chen, Y Chiang, C-Y Chu, H Chu, Y-K Eguchi, S Enomoto, Y Flaminio, R Fujii, Y Fujikawa, Y Fukunaga, M Fukushima, M Gao, D Ge, G Ha, S Hagiwara, A Haino, S Han, W-B Hasegawa, K Hattori, K Hayakawa, H Hayama, K Himemoto, Y Hiranuma, Y Hirata, N Hirose, E Hong, Z Hsieh, B Huang, G-Z Huang, H-Y Huang, P Huang, Y-C Huang, Y Hui, D C Y Ide, S Ikenoue, B Imam, S Inayoshi, K Inoue, Y Ioka, K Ito, K Itoh, Y Izumi, K Jeon, C Jin, H-B Jung, K Jung, P Kaihotsu, K Kajita, T Kakizaki, M Kamiizumi, M Kanda, N Kang, G Kawaguchi, K Kawai, N Kawasaki, T Kim, C Kim, J Kim, J C Kim, W S Kim, Y-M Kimura, N Kita, N Kitazawa, H Kobayashi, Y Kojima, Y Kokeyama, K Komori, K Kong, A K H Kotake, K Kozakai, C Kozu, R Kumar, R Kume, J Kuo, C Kuo, H-S Kuromiya, Y Kuroyanagi, S Kusayanagi, K Kwak, K Lee, H K Lee, H W Lee, R Leonardi, M Li, K L Lin, L C-C Lin, C-Y Lin, F-K Lin, F-L Lin, H L Liu, G C Luo, L-W Majorana, E Marchio, M Michimura, Y Mio, N Miyakawa, O Miyamoto, A Miyazaki, Y Miyo, K Miyoki, S Mori, Y Morisaki, S Moriwaki, Y Nagano, K Nagano, S Nakamura, K Nakano, H Nakano, M Nakashima, R Nakayama, Y Narikawa, T Naticchioni, L Negishi, R Quynh, L Nguyen Ni, W-T Nishizawa, A Nozaki, S Obuchi, Y Ogaki, W Oh, J J Oh, K Oh, S H Ohashi, M Ohashi, T Ohishi, N Ohkawa, M Ohta, H Okutani, Y Okutomi, K Oohara, K Ooi, C Oshino, S Otabe, S Pan, K Pang, H Parisi, A Park, J Arellano, F E Peña Pinto, I Sago, N Saito, S Saito, Y Sakai, K Sakai, Y Sakuno, Y Sasaki, Y Sato, S Sato, T Sawada, T Sekiguchi, T Sekiguchi, Y Shao, L Shibagaki, S Shimizu, R Shimoda, T Shimode, K Shinkai, H Shishido, T Shoda, A Somiya, K Son, E J Sotani, H Sugimoto, R Suresh, J Suzuki, T Tagoshi, H Takahashi, H Takahashi, R Takamori, A Takano, S Takeda, H Takeda, M Tanaka, H Tanaka, K Tanaka, T Tanioka, S Martin, E N Tapia San Telada, S Tomaru, T Tomigami, Y Tomura, T Travasso, F Trozzo, L Tsang, T Ts Gravitational Wave Science Project National Astronomical Observatory of Japan (NAOJ) 2-21-1 Osawa Mitaka City Tokyo 181-8588 Japan Advanced Technology Center National Astronomical Observatory of Japan (NAOJ) 2-21-1 Osawa Mitaka City Tokyo 181-8588 Japan Department of Physics The University of Tokyo 7-3-1 Hongo Bunkyo-ku Tokyo 113-0033 Japan Research Center for the Early Universe (RESCEU) The University of Tokyo 7-3-1 Hongo Bunkyo-ku Tokyo 113-0033 Japan Institute for Cosmic Ray Research (ICRR) KAGRA Observatory The University of Tokyo 5-1-5 Kashiwa-no-Ha Kashiwa City Chiba 277-8582 Japan Accelerator Laboratory High Energy Accelerator Research Organization (KEK) 1-1 Oho Tsukuba City Ibaraki 305-0801 Japan Earthquake Research Institute The University of Tokyo 1-1-1 Yayoi Bunkyo-ku Tokyo 113-0032 Japan Department of Mathematics and Physics Hirosaki University 3 Bunkyo-cho Hirosaki City Aomori 036-8561 Japan Kamioka Branch National Astronomical Observatory of Japan (NAOJ) 238 Higashi-Mozumi Kamioka-cho Hida City Gifu 506-1205 Japan The Graduate University for Advanced Studies (SOKENDAI) 2-21-1 Osawa Mitaka City Tokyo 181-8588 Japan Korea Institute of Science and Technology Information (KISTI) 245 Daehak-ro Yuseong-gu Daejeon 34141 Korea National Institute for Mathematical Sciences 70 Yuseong-daero 1689 Beon-gil Yuseong-gu Daejeon 34047 Korea International College Osaka University 1-1 Machikaneyama-cho Toyonaka City Osaka 560-0043 Japan School of High Energy Accelerator Science The Graduate University for Advanced Studies (SOKENDAI) 1-1 Oho Tsukuba City Ibaraki 305-0801 Japan Department of Astronomy Beijing Normal University No. 19 Xinjiekou Street Beijing 100875 China Department of Applied Physics Fukuoka University 8-19-1 Nanakuma Jonan Fukuoka City Fukuoka 814-0180 Japan Department of Physics Tamkang University No. 151 Yingzhuan Rd. Danshui Dist. New Taipei City 25137 Taiwan Department of Physics and Institute of Astronomy Nation

KAGRA is a newly built gravitational wave observatory, a laser interferometer with a 3 km arm length, located in Kamioka, Gifu prefecture, Japan. In this article, we describe the KAGRA data management system, i.e., recording of data, transfer from the KAGRA experiment site to computing resources, as well as data distribution to tier sites, including international sites in Taiwan and Korea. The amount of KAGRA data exceeded 1.0 PiB and increased by about 1.5 TB per day during operation in 2020. Our system has succeeded in data management, and has achieved performance that can withstand observations after 2023, that is, a transfer rate of 20 MB s-1or more and file storage of sufficient capacity for petabyte class. We also discuss the sharing of data between the global gravitational-wave detector network with other experiments, namely LIGO and Virgo. The latency, which consists of calculation of calibrated strain data and transfer time within the global network, is very important from the view of multi-messenger astronomy using gravitational waves. Real-time calbrated data delivered from the KAGRA detector site and other detectors to our computing system arrive with about 4–15 seconds of latency. These latencies are sufficiently short compared to the time taken for gravitational wave event search computations. We also established a high-latency exchange of offline calibrated data that was aggregated with a better accuracy compared with real-time data.

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Robots with seven degrees of freedom: Is the additional DoF worth it?

Robots with seven degrees of freedom: Is the additional DoF ...

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International Conference on Control, Automation and Robotics (ICCAR)

作者： I. Kuhlemann P. Jauer F. Ernst A. Schweikard Graduate School for Computing in Medicine and Life Sciences University of Lübeck Lübeck Germany Institute for Robotics and Cognitive Systems University of Lübeck Lübeck Germany

This paper presents a detailed dexterity analysis of three different kinematics, comparing six-DoF with seven-DoF robots. The KUKA LBR iiwa 7 lightweight robot represents the seven-DoF kinematics, while the KUKA KR 10 is chosen as a common six-DoF robot with comparable workspace dimensions. Furthermore, the LBR iiwa is simulated as a six-jointed robot to allow for a direct comparison of seven- and six-DoF kinematics. Due to this simulation it is possible to isolate the effects of the additional 7th DoF for the first time. The results show that the average dexterity is increased by 16.8% due to the additional 7th joint. Compared to the highest average dexterity of the seven-DoF manipulator, the six-DoF KR 10 outperforms this value by 7.6%.

关键词： Kinematics Manipulators Elbow Robot kinematics Service robots Manifolds

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Robust inverse kinematics by configuration control for redundant manipulators with seven DoF

Robust inverse kinematics by configuration control for redun...

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International Conference on Control, Automation and Robotics (ICCAR)

作者： I. Kuhlemann A. Schweikard P. Jauer F. Ernst Graduate School for Computing in Medicine and Life Sciences University of Lübeck Lübeck Germany Institute for Robotics and Cognitive Systems University of Lübeck Lübeck Germany

This paper presents an optimized, robust inverse kinematics solution in a closed form for redundant manipulators with seven degrees of freedom and zero link offsets like the KUKA LBR iiwa lightweight robot. The computation allows for full range elbow self-motion manifold control, defined by an intuitive angle parameter. Furthermore, by using common configuration parameters, all possible solutions for a single effector pose are taken into account and full arm configuration control is realized. The algorithm was evaluated looking at configuration reliability and continuity for an exemplary, challenging path. The results show that commanded arm configurations are not changing spontaneously inside a trajectory. Even for varying elbow self-motion manifold angles, the joint trajectories stay continuous and the presented algorithm provides consistent solutions. In a second evaluation, the algorithm was implemented in three programming languages and analyzed with respect to computing times. The tests demonstrate short runtimes and overall real-time capability.

关键词： Elbow Kinematics Manifolds Wrist Manipulators Aerospace electronics

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Linear stability of periodic three-body orbits with zero angular momentum and topological dependence of kepler's third law: A numerical test

arXiv

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arXiv 2017年

作者： Dmitrašinović, V. Hudomal, Ana Shibayama, Mitsuru Sugita, Ayumu Institute of Physics Belgrade University of Belgrade Pregrevica 118 Zemun P.O.Box 57 Beograd11080 Serbia Scientific Computing Laboratory Center for the Study of Complex Systems Institute of Physics Belgrade University of Belgrade Serbia Department of Applied Mathematics and Physics Graduate School of Informatics Kyoto University Yoshida-honmachi Sakyo-ku Kyoto606-8501 Japan Department of Applied Physics Osaka City University 3-3-138 Sugimoto Sumiyoshi-ku Osaka558-8585 Japan

We test numerically the recently proposed linear relationship between the scale-invariant period Ts.i.= T|E|3/2, and the topology of an orbit, on several hundred planar Newtonian periodic threebody orbits. Here T is the period of an orbit, E is its energy, so that *** the scale-invariant (s.i.) period, or, equivalently, the period at unit energy |E| = 1. All of these orbits have vanishing angular momentum and pass through a linear, equidistant configuration at least once. Such orbits are classified in ten algebraically well-defined sequences. Orbits in each sequence follow an approximate linear dependence of Ts.i., albeit with slightly different slopes and intercepts. The orbit with the shortest period in its sequence is called the "progenitor": six distinct orbits are the progenitors of these ten sequences. We have studied linear stability of these orbits, with the result that 21 orbits are linearly stable, which includes all of the progenitors. This is consistent with the Birkhoff-Lewis theorem, which implies existence of infinitely many periodic orbits for each stable progenitor, and in this way explains the existence and ensures infinite extension of each sequence. Copyright © 2017, The Authors. All rights reserved.

关键词： Orbits

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