Supercomputers in Nagoya University
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1 Supercomputers in Nagoya University KATSUYA ISHII The Information Technology Center (ITC) of Nagoya University was originally established as the Computing Center of Nagoya University, which all researchers of academic organization in Japan can used. The first supercomputer of Nagoya University was Fujitsu supercomputer VP100(250Mflops) installed in the Institute of Plasma Physics in January 1984, which was the first operated supercomputer in Japan. 1
2 High Performance Computing Infrasturacture of Japan office.jp/folders/english 3 Example 1.The K computer ( named for the Japanese word kei ( 京 ), meaning ) Fujitsu 88,128 SPARC64VIIIfx s at the RIKEN Advanced Institute for Computational Science,Kobe Petaflops (4 th of Top500) *TIT : Tsubame 2.5: Xeon+GPU 5.375Petaflops *U. Tokyo : Fujitsu FX10 SPARC64IXfx s 4,800nodes 1.135Petaflops *Tohoku Univ. :NEC SX ACE 2,560nodes etc 0.707Petaflops 2
3 2013/ /3 phaseⅠ 2014/3-2015/3 + High Definition Visualizaion System 0.59 PetaFlops Strage 7.32PB 2015/4to9- PhaseⅡ 3.9 PetaFlops Strage 11.28PB Fujitsu PRIMEHPC FX100 change 0.56 PetaFlops Strage 3.96PB SGI UV2000 add strage Fujitsu PRIMERGY CX400 gradeup visualization system Fujitsu PRIMEHPC FX10 Fujitsu PRIMERGY CX400 8K High-definition Display add new external strorage Storage system polarized 3D viewer HMD(Mix Reality) Dome monitor SINET4 NICE4 Network configuration Log in nods 8K display (185inch) Disk 3.36PB UV2000 Private LAN Control AN NFS_SV NetWork for memory MDT MetaData MDS OSS OST PRIMEHPC FX10 Nodes:384 Rpeak:90.8 TF Memory:32 GiB OS:LinuxOS(TXCOS) PRIMERGY CX400/250 Intel IvyBridge(2.7GHz)12cores Nodes:368 Rpeak:190.7 TF Memory:64 GiB OS:RedhatEnterpriseLinux6.4 PRIMERGY CX400/270 Intel IvyBridge(2.7GHz)12 コア +Xeon Phi3100 Nodes:184 Rpeak:279.9 TF Memory:128 GiB OS:RedhatEnterpriseLinux6.4 Storage system SFA12K 40+SS8460 [DDN] 4 Physical Capacity: 3.96 PB IBnetwork(InfiniBand FDR): 56GB/s LAN Contral nodes Manage nodes of Storage LAN Job manage. node Private LAN Job manage. Sub nodes Private LAN Manege. nodes servers 3
4 FX10 rimehpc/primehpc fx10 catalog en.pdf Band width/flops = 0.36Byte/Flops CX400 systems Fujitsu Primergy CX400 OS Red Hat Enterprise Linux 6.4 Processor Intel IvyBridge (2.7GHz) 12 core Number of Nodes 552(13,248 cores) Total Peak Performance 470.6Tflops Total memory capacity 43TiB Peak Performance of a node 518Gflops(24core) Memory capacity of a node 64GiB(270)/128GiB(250) coprosessor Processor Number of Nodes(cores) Peak performance of a node Memory capacity of a node Xeon Phi3100 family(mic) Accelerator(Pcle G2) 1.1GHz 57cores 184(10,488cores) 1,003Gflops(57cores) 6GiB 4
5 Examples of Matrix multiplication (Block method) C=AB Batch Job Max usable time JOB CLass Nodes Cores Default (Hours) Max (Hours) Memory FX10 CX400/250 CX400/270 fx interactive GiB For Deug fx debug GiB 4 fx small GiB 12 fx middle GiB 48 fx large 96 1, GiB 96 fx special 384 6,144 unlimited 28GiB 384 consult cx debug GiB 4 For Debug cx single GiB 1 cx small GiB 8 cx middle GiB 32 cx large 128 3, GiB 128 cx special 368 8,832 unlimited 56GiB 368 consult cx2 debug GiB 4 For Debug cx2 small GiB 8 cx2 middle GiB 32 cx2 large 64 1, GiB 64 cx2 special 184 4,416 Unlimited 112GiB 184 consult 5
6 2nd Floor SuperComputer FX10 Front end Machine(Login node) Storage System 3rd Floor Supercomputer CX400 CX400/250 CX400/270+Phi 6
7 First Phase ~ Second Phase ~ SystemI Fujitsu Sparc FX10: 0.1 PFLOPS FX100: 3.2PetaFLOPS System II Intel CPU CX400: 0.47 PFLOPS CX400: 0.68 PFLOPS Storage 3.96 PB 7.92 PB FX100 architecture (New Fujitsu SC) BF=0.48Byte/flops fx100 datasheeten.pdf 7
8 2,880nodes rimehpc/primehpc fx100 datasheet en.pdf CX400/2550 systems Fujitsu Primergy CX400 OS Red Hat Enterprise Linux Processor Intel Haswell Number of Nodes 400 Total Peak Performance 400Tflops Total memory capacity 51.2TiB Peak Performance of a node 1Tflops Memory capacity of a node 128GiB 8
9 CX400/270 systems Fujitsu Primergy CX400 OS Red Hat Enterprise Linux 6.4 Processor Intel IvyBridge (2.7GHz) 12 core Number of Nodes 184( 4,416cores) Total Peak Performance 96Tflops Total memory capacity Peak Performance of a node 518Gflops(24core) Memory capacity of a node 128GiB coprosessor Processor Number of Nodes(cores) Peak performance of a node Memory capacity of a node Xeon Phi3100 family(mic) Accelerator(Pcle G2) 1.1GHz 57cores 184(10,488cores) 1,003Gflops(57cores) 6GiB Visualization System for Pre/Post Process A Linux Server with Large Shared Memory WindowsPC s Soft ware (SMP pallarel) Displays many Core CPU/GPU High speed and Large External Strage 9
10 Supercomputer for visualization SGI Altix UV TFLOPS/ 20TiB MEM (shared) Intel Xeon 2.4GHz 1280 Cores Controlled 8K Desktop monitor 4K 4K Cubix Xpander Rackmount16 2 NVIDIA Quadro K K 4K DVI D Optical fiber Cable 32 Samsung UD46C 16 Resolution: DAS 接続 (FDR 4) NFS Private InfiniteStorage bay Physical Capacity:3.36PB RAID6 Disk Array of Supercomputer Capacity:8PB RAID6 Visualizaion System HPCI (Science Information Network:SINET) Supercomputer systems of Nagoya Univ. (System LAN) 8K visualization System Polarized 3D system Onsite Service On site visualization system 185inch 150inch Asterism IDX416VR Connect my HardDick 8Ktile display Poralized 3D FullHD DLP (46inch monitor 4 4) Mixed Reality system Dome Display Workstation Remote visualization system Panoviewer High resolution visualized system CANON MREAL Vicon Remote interactive operation Video Camera+CG Head Mounted Display Wide view(about 180) 10
11 2015/3/16 Room View 可視化室 Trackin sensor Audio system VICON Dom display 185inch 8KDisplay 150inch Full HD polarized 3D projector On site system server CANON製MR NVIS社製ST50 Mixed Reality Trackin Sensor VICON Flow simulation in my Beer Glass Typhoon Simulation High Definition Visuarization data from Exelis VIS Pre/Post Process of Numerical simulation satellite image data VMD Visual Molecular Dynamics using interactive simulation 50cm resolution 2011/4/6 2011/2/4 Data from Digital Globe 11
12 SGI UV2000 Software システム名 SGI UV 2000 OS SuSE Linux Enterprise Server 11 Development Intel Composer XE Math Library Intel MKL 11.1 MPI SGI MPT 2.08 Batch PBS Professional 12.2 Softwares for Visualization Software for remote 3D visualization Others AVS Express Developer PCE Enshight DR ParaView(parallel) IDL ENVI SGI NICE DCV POV-Ray (SMP 対応版 ) ffmpeg,ffplay,osgviewer,vmd など Fourier Transformation FFTW 3.3 I/O library HDF ,netcdf Visualization Examples 12
13 Flow Simulation V アプリケーションプログラム Input data Modify AVS Express program Output data Visualizatiom Analyzing program Physical data Image data Movie data (mpeg,avi) 3D Movie data(gfa) 3D data(stl) 3D AVS Player Windows version Linux version Typhoon Cloud Rain 13
14 Flow simulation in a Cerebral Aneurysm Slice Data Voxcel Data FDM mesh Visualization of results Acknowledgment FUJITSU SGI Japan NVIDIA CYBERNET SYSTEMS Exelis VIS 14
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