SARA Overview. Walter Lioen Group Leader Supercomputing & Senior Consultant

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1 SARA Overview Walter Lioen Group Leader Supercomputing & Senior Consultant

2 Science Park Amsterdam Faculty of Science of the Universiteit van Amsterdam National Institute for Nuclear Physics and High Energy Physics (NIKHEF) Institute for Atomic and Molecular Physics (AMOLF) National Research Institute for Mathematics and Computer Science (CWI) SARA Vancis AMSterdam Internet exchange (AMS-IX) Matrix Innovation Center, with 80+ innovative companies in life sciences, ICT and other areas

3 About SARA SARA is an independent non-profit company delivering a full service package in the areas of High-Performance Computing and Networking, data storage, visualization and e-science services Founded in 1971 as an Amsterdam computing center by the two Amsterdam universities (UvA and VU) and the current CWI Independent as of 1995 Founded Vancis in 2008 offering ICT services and ICT products to enterprises, universities, and educational and healthcare institutions. First supercomputer in The Netherlands at SARA in 1984 (Control Data Cyber 205). Hosting the national supercomputer(s) ever since.

4 SARA s Mission SARA supports research in the Netherlands by providing and developing advanced ICTinfrastructure, services and expertise Integrated ICT research infrastructure Provide services on computing, data, visualization, networking, cloud and e-science Provide multidisciplinary expertise and support Innovation of infrastructure and services

5 SARA OSD Formerly known as HPC&V and HPN, Operations, Support and Development is subdivided in six groups: Supercomputing Clustercomputing e-science & Cloud Services Visualization Data services Network innovation & support Some 50 people System Programmers / Consultants HBO PhD

6 National context Stichting Nationale Computer Faciliteiten BioAssist LOFAR SURFnet6 network Virtual Lab e-science NL-Grid, BiG-Grid

7 International context Visualization & networking OptIPuter Lambda networking GLIF, Netherlight Phosphorous PRACE, Partnership for Advanced Computing in Europe Data storage and processing EGEE grid

8 HPC Facilities at SARA Capacity computing BiG Grid national grid infrastructure Lisa national compute cluster Capability computing Huygens national supercomputer Experimental capability computing GPU cluster HPC Cloud Access method depends on your affiliation, for questions contact: SARA helpdesk

9 Supercomputing Huygens IBM pseries 575 Processor: IBM Power6, 4.7 GHz (dual core) Node: 16 dual core processors In total: 108 nodes, 3456 cores 65 Tflop/s Memory: 128 GB (90 SCN) or 256 GB (18 MCNs) TB Interconnect: 8 (4 DDR) Infiniband 160 Gbit/s inter-node Disk: 3240 x 300 GB = 972 TB (700 TB net capacity) OS: SuSE SLES11SP1 Watercooling: 33% more energy efficient (6º C inlet; 25º C outlet) Energy consumption: kw Cabling: 30.7 km (IB, FC, UTP) Huygens 9 compute racks (1700 kg each) 4 Infiniband racks 20 storage racks Number 52 in the November 2008 Top500 (48.55 Tflop/s) 79 in Jun09, 92 in Nov09, 109 in Jun10, 156 in Nov10, 303 in Jun11, Designed to be a well balanced system instead of being a Top500 killer!

10 Huygens Water Cooling

11 Cluster Computing Lisa Dutch National Compute Cluster Lisa At present: 512 heterogeneous Dell nodes GB 3 types dual quad hexa core Intel GHz CPUs Qlogic 4 DDR Infiniband 20 Gbit/s inter-node Total: 4,480 cores, 20 Tflop/s, TB 48 TB disk space OS: Debian Linux AMD64 Allocation unit: node (8 12 cores) SARA installed the Lisa system on behalf of The University of Amsterdam (UvA) The VU University of Amsterdam (VU) The Netherlands National Computing Facilities Foundation (NCF) FOM institutes MPR projects Van 't Hoff Institute for Molecular Sciences (HIMS)

12 GPU cluster 8 HP dual quad core nodes, 2 NVIDIA Tesla GPUs/node 16 Tflop/s IB interconnect CUDA environment OpenCL GPU code: C-like CPU code: C+++ Fortran possible with Portland Group compiler, however, not available at SARA GPU code: own C version CPU code: native C compiler (Intel / GCC) (OpenGL / Assembler) For pilot experiments and production runs

13 Grid Computing Historically, NCF has facilitated access to high-end computing equipment (national supercomputer and national compute cluster) The BiG Grid project (led by partners NCF, Nikhef and NBIC) aims to set up a grid infrastructure for scientific research Operational partners: SARA, Nikhef, Philips Research, RUG-CIT Grid Computing Communities: HEP, Bioinformatics, ++ High-throughput computing Automated computing power Typically, no communication Execution site is irrelevant Typical allocation unit: job slot = 1 core

14 HPC Cloud Developed by SARA as a BiG Grid service Virtual Private Compute Cluster Full control over environment Users can start from existing templates (images) build their own cluster from scratch make a copy from their current software environment (e.g. their laptop or desktop pc) and turn that into an HPC cluster in the Cloud Self-service 19 Nodes CPU Intel 2.13 GHz 32 cores (Xeon-E7 "Westmere-EX") RAM 256 GB Local disk 10 TB Ethernet 4*10 GE Total System 608 cores RAM 4.75TB 96 ports 10GE, 1-hop, non-blocking interconnect 400TB shared storage (ISCSI,NFS,CIFS,CDMI...) 11.5K specints / 5 TFlops

15 What HPC facility to use Capacity computing: Lisa Many small jobs / task farming Small parallel jobs, however, can handle 256 node (8 core) jobs Not I/O intensive 1 3 GB/core Max 24 GB / node Capability computing: Huygens Large multi-node jobs (3 shared nodes for small jobs and/or data staging jobs) I/O intensive (up to 28 GB/s aggregate read performance) 4 or 8 GB/core Max 256 GB / node Experimental: GPU Relatively small compute intensive kernel (because of relatively large programming effort) Special needs: HPC Cloud

16 Mass storage infrastructure Storage on-demand Advanced services on-demand EMC disk array (100 TB) SAN and NAS storage, FC and SATA Tape libraries STK SL8500, 9940B, T10k drives STK SL8500, 9940B, T10K drives Long-distance SAN (30km), off-site backup Current data transfer to/from tape av. 5TB/day Capacity ~18PB (2008) Doubling of stored data every year SARA Amsterdam Large storage of scientific data, simulation and experimentation Remote back-up and archiving on-demand service SARA Almere

17 Visualization and virtual reality high-end facilities 15 high resolution LCD screens ( x1600) Total screen resolution x 4800 pixel graphics power on demand expertise: 17 node Dell RVS cluster virtual reality scientific visualization and data analysis software development and rapid prototyping

18 User Support Expert user support (help desk, online documentation, (grid-) tutorials, courses) 6 full time HPC consultants (all computational scientists) for both Huygens and Lisa Optimization, parallelization/hyperscaling of user codes Benchmarking Visualization and data analysis of complex data sets Grid support Gridification of applications Grid-enabling of (local) resources Grid tutorials, education of traditional HPC users to use grid infrastructure Support for Grand-Challenge applications e-science support

19 Helpdesk Monday to Friday, between 9 am and 5 pm hic@sara.nl Questions Problems Access Hardware Software File restore (after accidental removal by owner ) User assistance Software configuration / installation Porting (limited: hours/days not weeks) Debugging (limited) Optimization / tuning (limited or via NCF/PRACE) Software package installation requests Access requests ( only) Any special requests

20 Summary of possibilities 1/3 Lisa compute cluster: your application depends on your affiliation if application via NCF then similar to Huygens application below, otherwise, it only takes one (or two) s Huygens supercomputer: application via NCF requires project proposal; will be peer reviewed; reporting required Huygens DCCP: Dutch Computing Challenge Projects via NCF DECI: Distributed Extreme Computing Initiative projects via PRACE peer reviewed and funded via NCF

21 Summary of possibilities 2/3 Huygens access schemes through NCF Pilot projects (10k 20k CPU hrs): fast access within days, light weight procedure Regular projects (20k 1M CPU hrs): access within 6 8 weeks, regular peer review The NCF office (to be confirmed by the WGS) is in general able to provide you with a preliminary amount of computing time, which is around 10 20% of what you applied for. Dutch Compute Challenge Projects (> 1M CPU hrs): access 6 12 weeks, peer review Info at or

22 Summary of possibilities 3/3 Parallelization/optimization project: contact SARA helpdesk for feasibility and assistance with application via NCF Visualization project: contact SARA helpdesk HPC Europa transnational access programme

23 Thank you for listening!

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