Publications

2022

Bozitao Zhong, Xiaoming Su, Minhua Wen, Sicheng Zuo, Liang Hong, James Lin. ParaFold: Paralleling AlphaFold for Large-Scale Predictions. HPC Asia 2022.

2021

Binrui Li, Chenggan Chen, James Lin. tcFFT: A Fast Half-Precision FFT Library for NVIDIA Tensor Cores. IEEE CLUSTER 2021.

Wang N, Qin W, Zheng Z, et al. Hepatitis B Virus-Associated Follicular Lymphoma Reveals T-Cell Inflamed Phenotype and Response to Lenalidomide[J]. Cancer Communications. 2021;1–5. （计算团队合作论文）

2020

NeoMPX: Characterizing and Improving Estimation of Multiplexing Hardware Counters for PAPI. Yi-Chao Wang, Jie Wang, Jin-Kun Chen, Si-Cheng Zuo, Xiao-Ming Su and James Lin. IEEE CLUSTER 2020. (CCF B类)

基于定点压缩技术的双层粒子网格算法的设计与优化[J]. 程盛淦, 于浩然, 韦建文, 林新华. 计算机科学, 2020, 47(08):56-61.

声子BTE应用的并行和优化研究[J]. 文敏华, 刘永志, 鲍华, 胡跃, 沈泳星, 韦建文, 林新华. 计算机科学与探索, 2020, 14(08):1288-1297.

王一超;胡航;William Tang;王蓓;林新华;.使用GTC-P应用评估曙光E级原型机的性能[J].计算机工程与科学,2020,01:1-7

CUBE -- Towards an Optimal Scaling of Cosmological N-body Simulations. Shenggan Cheng, Hao-Ran Yu, Derek Inman, Qiucheng Liao, Qiaoya Wu, James Lin. CCGrid 2020 (CCF C类)

2019

[ICPADS] An Empirical Study of HPC Workloads on Huawei Kunpeng Arm-based Processor. Yi-Chao Wang, Jinkun Chen, Binrui Li, Sicheng Zuo, William Tang, Bei Wang, Qiucheng Liao and James Lin. In 2019 IEEE 25th International Conference on Parallel and Distributed Systems (ICPADS), IEEE, 2019. (CCF C类)

一种ARM处理器面向高性能计算的性能评估[J]. 王一超, 廖秋承, 左思成, 谢锐, 林新华. 计算机科学, 2019, 46(8): 95-99.

Videl: A Vision-based AI Diagnoser for Early Leukemia. Shenggan Cheng, Jianwen Wei, Ming Zhao, Zhangyu jin, Jie Wang, Yichao Wang. HPCAsia 2019 Workshops, 1-5

2018

[ICPADS] Optimizing Deep Learning Frameworks Incrementally to Get Linear Speedup: A Comparison Between IPoIB and RDMA Verbs. Chang Liu, Jianwen Wei, Yi-Chao Wang, Minhua Wen, Simon See and James Lin. IEEE ICPADS, Sentosa, Singapore, December 11-13, 2018. (CCF C类)

[HPC China] Performance Evaluation of ARM Cortex-A72 Multi-core Server Processors. Yi-Chao Wang, Xinxin Chen, Yujie Yang, Sicheng Zuo and James Lin. HPC China, Qingdao, China, October 18-20, 2018.

Optimizing a Particle-in-Cell Code on Intel Knights Landing. Minghua Wen, Min Chen, and James Lin. In IXPUG Workshop Asia 2018, ACM, Tokyo, Japan, 2018

[CLUSTER] OpenACC vs the Native Programming on Sunway TaihuLight: A Case Study with GTC-P. Linjin Cai, Yi-Chao Wang, William Tang, Bei Wang, Stephane Ethier, Zhao Liu and James Lin. IEEE Cluster Conference, Belfast, UK, September 10-14, 2018. (CCF C类)[pdf]

[PARCO] Evaluating the SW26010 many-core processor with a micro-benchmark suite for performance optimizations[J]. James Lin, Zhigeng Xu, Linjin Cai, Akira Nukada and Satoshi Matsuoka. Parallel Computing, 2018, 77, 128-143 (CCF B类)

太湖之光上利用OpenACC移植和优化GTC-P[J]. 王一超,林新华,蔡林金,TangWilliam,EthierStephane,王蓓,施忠伟,松岗聪. 计算机研究与发展, 2018, 55(4): 875-884.(EI索引])[pdf]

Optimizations of Preconditioned Conjugate Gradient on TaihuLight for OpenFOAM. James Lin, Minhua Wen, Delong Meng, Xin Liu, Akira Nukada and Satoshi Matsuoka. CCGrid 2018 (CCF C类)

Optimization and Evaluation of VLPL-S on Knights Landing[J]. Ding D, Wen M, Zhou S, et al. Journal of Frontiers of Computer Science & Technology, 2018..[pdf]

VLPL-S在Knights Landing上的优化与性能评估[J]. 丁丹迪, 文敏华, 周姗, 陈民, 林新华. 计算机科学与探索, 2018,12(02):241-251.

激光等离子体相互作用模拟的并行和加速研究[J]. 武海鹏,文敏华,SEE Simon,林新华. 计算机科学与探索,2018,12(04):550-558.

2017

[ICPP] Optimizations of Two Compute-bound Scientific Kernels on SW26010 Many-core Processor. James Lin, Zhigeng Xu, Akira Nukada, Naoya Maruyama, Satoshi Matsuoka. International Conference on Parallel Processing (ICPP2017),Bristol, UK, August 14-17, 2017. (CCF B类) [pdf]

[IPDPSW] Benchmarking SW26010 Many-Core Processor. zhigeng Xu, James Lin, Satoshi Matsuoka. 2017 IEEE International Parallel and Distributed Processing Symposium: Workshops (IPDPSW), IEEE, 2017: 432-441. [pdf]

使用Stencil评估Intel AVX2 Vgather指令[J]. 林新华,秦强,李硕,文敏华,松岗聪.计算机科学,2017,44(01):20-24.

异构集群上的宏基因组聚类优化[J].韦建文,许志耿,王丙强,Simon SEE,林新华.计算机科学,2017,44(03):20-22+47.

神威太湖之光上OpenFOAM的移植与优化[J]. 孟德龙,文敏华,韦建文,林新华. 计算机科学,2017,44(10):64-70.

星系分组算法的并行设计与优化:SGI系统与分布式集群对比[J].司雨濛,韦建文,Simon SEE,林新华.计算机科学,2017,44(10):80-84.

2016

[Concurrency and Computation: Practice and Experience] Accelerating Asian option pricing on many-core architectures[J]. Shuo Li, James Lin. Concurrency and Computation: Practice and Experience, 2016, 28(3): 848-865. (CCF C类)[pdf]

[NAOC] An Empirical Model to Form and Evolve Galaxies in Dark Matter Halos. Shi-Jie Li, You-Cai Zhang, Xiao-Hu Yang, Hui-Yuan Wang, Dylan Tweed, Cheng-Ze Liu, Lei Yang, Feng Shi, Yi Lu, Wen-Tao Luo and Jian-Wen Wei. 2016 National Astronomical Observatories, Chinese Academy of Sciences and IOP Publishing Ltd. Research in Astronomy and Astrophysics, Volume 16, Number 8. (IF=1.292) [pdf]

[PDCAT] Performance and Portability Studies with OpenACC Accelerated Version of GTC-P. Yueming Wei, Yichao Wang, Linjin Cai, William Tang, Bei Wang, Stephane Ethier, Simon See and James Lin. The 17th International Conference on Parallel and Distributed Computing, Applications and Technologies, Guangzhou, China, December 16-18, 2016. [pdf]

[HPC China] Porting and Optimizing GTC-P on TaihuLight Supercomputer with Sunway OpenACC. Yichao Wang, James Lin, Linjin Cai, William Tang, Stephane Ethier, Bei Wang, Simon See and Satoshi Matsuoka. HPC China 2016, (Best Paper Award), Xi’an, China, October 27-29, 2016. [pdf] [slides]

[HPC China] Parallelization and Optimization of Laser-Plasma-Interaction Simulation Based on Kepler Cluster. Haipeng Wu, Minhua Wen, Simon See and James Lin. HPC China 2016, Xi’an, China, October 27-29, 2016. [pdf] [slides]

[HPC China] Hybrid Implementation and Optimization of OpenFOAM on the SW26010 Many-core Processor. Delong Meng, Minhua Wen, Jianwen Wei and James Lin. HPC China 2016, Xi’an, China, October 27-29, 2016.

[HPC China] Optimizing a Galaxy Group Finding Algorithm on SMP vs. Distributed Memory Cluster. Yumeng Si, Jianwen Wei, Simon See and James Lin. HPC China 2016, Xi’an, China, October 27-29, 2016. [pdf] [slides]

2015

[IPDPSW] Understanding Performance Portability of OpenACC for Supercomputers. Suttinee Sawadsitang, James Lin, Simon See, Francois Bodin and Satoshi Matsuoka. Parallel and Distributed Processing Symposium Workshop (IPDPSW), 2015 IEEE International. IEEE, 2015: 699-707. [pdf]

[CCGrid Workshop] An Evaluation of Unified Memory Technology on NVIDIA GPUs. Wenqiang Li, Guanghao Jin, Xuewen Cui and Simon See. 2nd Workshop on Parallel Programming Model for the Masses (PPMM2015). [pdf] [slides]

[CCGrid DS] Modeling Gather and Scatter with Hardware Performance Counters for Xeon Phi. James Lin, Akira Nukada and Satoshi Matsuoka. Doctoral Symposium, CCGrid, 2015. [pdf]

[HPC China] Accelerating Gene Clustering on Heterogeneous Clusters. Jianwen Wei, Zhigeng Xu, Bingqiang Wang, Simon See and James Lin. HPC China 2015, Wuxi, China, November 6-8, 2015. [pdf] [slides]

[HPC China] Evaluating Intel AVX2 Vgather Instructions with Stencils. James Lin, Qiang Qin, Shuo Li, Minhua Wen and Satoshi Matsuoka. HPC China 2015, Wuxi, China, November 6-8, 2015. [pdf]

[HPC China] Optimize Irregular Memory Access in Astronomic Clustering Application. He Hao, Yumeng Si, Jianwen Wei, Minhua Wen and James Lin. HPC China 2015, Wuxi, China, November 6-8, 2015. [pdf]

[HPC China] Implementation and Optimization of HGGF Application on Intel Xeon Phi Platform. Zhigeng Xu, Junyi Qiu, Yueming Wei, Yizhe Dong, Jianwen Wei and James Lin. HPC China 2015, Wuxi, China, November 6-8, 2015.[pdf]

2014

[HPC China] Node-level Memory Access Optimization on Intel Knights Corner. James Lin, Shuo Li, Jiaming Zhao and Satoshi Matsuoka. HPC China 2014, Guangzhou, China, November 4-8, 2014.[pdf]

[HPC China] Research and Advices on Development Patterns of Supercomputing Centers in the World. Gui'an Feng and James Lin. HPC China 2014, Guangzhou, China, November 4-8, 2014. [pdf]

2013

[HPC China] A NVIDIA Kepler Based Acceleration of PIC Method. Wen Minhua, James Lin and Simon See. HPC China 2013, Guilin, China, October 27-31, 2013. [pdf]

[HPC China] Performance Portability Evaluation for OpenACC on Intel Knights Corner and Nvidia Kepler. Yichao Wang, Qiang Qin, Simon See and James Lin. HPC China 2013, Guilin, China, October 27-31, 2013. [pdf]

2012

[HPC China] A GPU Based Parallel Method For Dynamic Collision Grid DSMC. Minhua Wen, James Lin and Simon See. HPC China 2012, Hunan, China, October 27-31, 2012. [word]