Recommended
More Related Content
What's hot
What's hot (8)
Viewers also liked
Viewers also liked (18)
Similar to 2011 11-10 e-bio-grid_workshop introduction
Similar to 2011 11-10 e-bio-grid_workshop introduction (20)
Recently uploaded
Recently uploaded (20)
2011 11-10 e-bio-grid_workshop introduction
- 1. e-BioGrid E-Science infrastructure for life science research E-BioGrid workshop, November 10, 2011 Introduction
- 2. Big Grid infrastructure High-performance computing and storage resources, Grid – Life Science Grid High Performance Cloud Hadoop (soon) Non-Big Grid but available via NWO/NCF: Huygens, LISA, GPU
- 4. How to apply for access? All applications go into the NWO/NCF IRIS system. Basically: specify what you need, why And give an estimate how much you need. All applications go to Big Grid when Big Grid infrastructure is involved. Please contact us for assistance. For Huygens and Lisa, NWO/NCF will We are working to simplify consider all applications this procedure.
- 5. What does SARA do? SARA doesn’t own the systems. SARA doesn’t decide on user access. SARA doesn’t host websites, small scale services, wiki’s etc. SARA maintains HPC systems, provides assistance and consultancy. SARA works in scientific projects like eBioGrid to assist in the use of HPC hardware and e-science environments. SARA works on parallelization projects (funded by NWO): parallelize your software for use on HPC hardware.
- 6. The Life Science Grid WHAT IT IS •Several clusters at academic medical centers and universities. •Open to all life scientists based in the Netherlands. •Clusters can be used separately or together by using Grid middleware. •Currently more than 3700 job slots for concurrent processing. •Distributive storage capabilities and automatic replication of data. •Maintained and supported by SARA.
- 7. The Life Science Grid sites LUMC – Leiden WUR – Wageningen UU – Utrecht NKI – Amsterdam AMC – Amsterdam Radboud Universiteit – Nijmegen ErasmusMC – Rotterdam Technische Universiteit - Delft Rijksuniversiteit Groningen Keygene - Wageningen Each of these clusters have either 16 or 32 cores and 18 Tb of storage space.
- 8. Grid nodes Currently 6 small clusters :16 job slots each, soon to be upgraded 5 clusters: 32 job slots each 32 job slot each- 20TB storage All clusters run CentOS 5– 64 bits Gina cluster SARA 2800 job slots Philips 1470 Nikhef 2160 Groningen 164
- 9. High Performance Cloud 19 nodes of 32 cores each (608 cores) Each node has 256 GB RAM 400 TB storage. Nodes are connected by four 10 Gb interfaces to a non-blocking switch. So maximum 40 GB access to storage (per node).
- 10. High Performance Cloud When to use cloud? Start up your own Virtual Machines. Be your own boss. Users have their own Virtual Cluster, running their OS and software of choice. Expand when you need to. You must be able to organize system administration yourself.
- 11. Huygens National Supercomputer Huygens is an IBM pSeries 575 system. The number of IBM Power6 cores is 3456. The total peak performance is 65 Tflop/s. The total memory is 15.75 TB. The inter-node InfiniBand interconnect is 160 Gbit/s. The net disk space is 700 TB. The system runs Linux (SLES11 SP1)
- 12. Huygens: when to use Often used for large scale simulations Parallel systems with interdependencies and a need for high speed interconnects. Software typically uses MPI or openMP. Parallel jobs communicate heavily with each other. Existing sofware is often ported in NWO funded parallelization projects.
- 13. LISA: Description Total number of cores 4480 Total amount of memory12 TB Total peak performance20 TFlop/sec Disk space 48 TB Operating systemDebian Linux AMD64 OS Affiliates of UvA and VU can use this system directly. LISA is a popular PBS cluster.
- 15. Hadoop (soon to come)
- 16. Hadoop (soon to come)
- 17. Finally Which infrastructure to choose for your problem? Ask eBioGrid. How to get access? NWO/NCF Iris system Ask eBioGrid/SARA for help. How to get assistance? Ask eBioGrid for support.