Recent and Future Activities in HPC and Scientific Data Management Siegfried Benkner
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1 Recent and Future Activities in HPC and Scientific Data Management Siegfried Benkner Research Group Scientific Computing Faculty of Computer Science University of Vienna AUSTRIA
2 Research Group Scientific Computing One of twelve research groups at the Faculty of Computer Science, University of Vienna. Parallel Computing / HPC o o o Programming Models and Languages Compiler and Runtime Technologies Programming Environments and Tools Vienna Fortran, HPF+, Hybrid Programming, Multicore, GPU, Phi Grid/Cloud/Big Data o Compute and Data Services o Semantic Data Integration o Big Data and HPC Vienna Cloud Environment, VPH-Share,
3 Recent Research Projects PEPPHER, Performance Portability and Programmability for Heterogeneous Many-core Architectures European Commission, FP7, , Coordinator VPH-SHARE, Virtual Physiological Human - Sharing for Healthcare, European Commission, FP7, AutoTune - Automatic Online Tuning, European Commission, FP7, RETIDA - Real-Time Data Analytics for the Mobility Domain, FFG,
4 EU Project PEPPHER Performance Portability & Programmability for Heterogeneous Many-Core Architectures FP7 ICT, Computing Systems; Partners: UNIVIE, INRIA, LIU, Intel, Movidus, Codeplay, KIT, Chalmers, TUW Methodology & framework for development of performance portable code Execute same application efficiently on different heterogeneous architectures Support real hybrid execution to exploit all available computing units Application (C/C++ PEPPHER Framework Many-core CPU CPU+GPU PEPPHER Sim PePU (Movidius Focus: Single-node heterogeneous architectures Intel MIC
5 PEPPHER Framework Applications Embedded General Purpose HPC High-Level Coordination/Patterns/Skeletons Pla%orm Pla%orm Model Component Model (PDL Descriptor (PDL Components C/C++, OpenMP, CUDA, OpenCL, TBB, Offload Autotuned Algorithms Data Structures Transformation & Composition Component Task Graph Performance Models Performance feedback PEPPHER Run-time (StarPU Scheduling Strategy Scheduling Strategy Drivers (CUDA, OpenCL, OpenMP CPU GPU MIC SIM PePU Pla%orm Pla%orm Pla%orm Model Model (PDL Descriptor (PDL (PDL
6 The AutoTune Project FP7 ICT, Computing Systems; 42 months, Partners: TUM, UAB, CAPS, LRZ, ICHEC, UVIE Combine performance analysis and tuning into single framework. Periscope Tuning Framework (PTF Extend Periscope with automatic tuning plugins for performance and energy efficiency tuning. Design'Time' Coding' Performance'Analysis' Execute whole tuning process online (performance analysis and tuning during single application run. Use expert knowledge to guide search for performance properties and tuned versions. Tuning' Run,me' Performance'Analysis' Tuning'
7 Periscope Tuning Framework (PTF Parallel architectures Multicore servers Supercomputers (SuperMUC Accelerated systems (GPU, Xeon Phi Tuning (at Different Layers of SW Stack High-level language (directives/annotations Compilers / Transformation systems Runtime systems and libraries Operating system Programming paradigms MPI, MPI/OpenMP OpenCL/CUDA Parallel Patterns (PEPPHER Developed Tuning Plugins MPI Parameter Tuning Pipeline Patterns for CPU/GPU DVFS Plugin Compiler Flags Selection MPI Master/Worker Tuning OpenCL Worksize Tuning PTF available as open source:
8 EU Project VPH-Share Virtual Physiological Human: Sharing for Healthcare (European Commission, FP7, , Coordinator: The University of Sheffield VPH-Share developed a Cloud infostructure to facilitate integration of/ access to... Patient data across different systems, hospitals, countries... Information/models related to various parts and processes of human body Knowledge (guidelines, standards, protocols in research and clinical practice Specific requirements Complex, distributed, heterogeneous data (multi-scale, multi-modal Sensitive data (security, privacy, legal issues, data quality Specialized analytics to integrate bioinformatics and systems biology information with clinical observations
9 Retrieve Existing Data Select Workflow Infer missing items Return Results & Support Run simulation Infostructure VPH Outreach Knowledge Discovery Data Inference Data Services: Patient/Population HPC Infrastructure DraC 1v0, July 2012 University of Sheffield, UK Partners: VPH OP ViroLab Patient Centred Computational Workflows Knowledge Management Compute Services Project No: Co-ordinator: Personalised Model Patient Avatar Application Patient Data Workflow Inputs Workflow Outputs Users Decision Support Storage Services CYFRONET, PL Sheffield Teaching Hospitals, UK ATOS Origin, ES Kings College London, UK Universitat Pompeu Fabra, ES Empirica, DE SCS SRL, IT NHS IC, UK INRIA, FR IOR, IT Open Univ., UK Philips Elec., NL TU Eindhoven, NL Univ. Auckland, NZ Uv Amsterdam, NL UCL, UK Univ. Vienna, AT AATRM, ES FCRB, ES Cloud Platform (Public / Private (DEISA / PRACE p- medicine & VPH- Share: Sankt Augus9n, Friday, 31st August
10 VPH-Share Data Management Data Publication Suite select & annotate data with semantic concepts, de-identify selected data items expose data as Cloud services Institution Data Publication Suite Internal( Dataset( Publish Cloud Infrastructure Data Management Deploy & Expose Datasets Dataset Service Dataset( Data Service Environment (VDSE based on Vienna Cloud Environment (VCE provision of data sets (RDBs as Cloud services access via SQL or SPARQL provide on-demand customized views federation across multiple data sets preserve autonomy of underlying data sources Client Client Client SQL/SPARQL Virtual Dataset Service Query Dataset Service Virtual Dataset Services Dataset( Dataset( DBS DBS Semantic mechanisms to discover, link and search data Dataset Service Vienna Data Service Environment DBS DBS S. Benkner, Research Group Scientific Computing, University of Vienna.
11 VPH-Share Data Publication Suite S. Benkner, Research Group Scientific Computing, University of Vienna.
12 RETIDA Real-time data analytics for the mobility domain Austrian FFG, ICT of the Future, Real-time integration and analytics of large-scale heterogeneous data sources mobile phone data, floating car data, GIS, weather, social media, Massively parallel, adaptive execution of generic data analytics workflows support for heterogeneous architectures (GPUs, Xeon Phi, Application-specific visualizations S. Benkner, Research Group Scientific Computing, University of Vienna.
13 RETIDA Streaming Data Sources BatchProcessingLayer Scalable Storage (HDFS complete data set Stream processing (current data ServingLayer Computation of batch views Batch views Real-Time views Increment views Queries Real%TimeProcessingLayer Hadoop-based lambda architecture scalable and fault-tolerant processing real-time vs. batch High performance data pipeline C++ re-configurable framework real-time processing capabilities S. Benkner, Research Group Scientific Computing, University of Vienna.
14 Future Research Programming Support for Big Data Applications Taking Advantage of Heterogeneous Architectures Streaming and Real-Time Support Runtime systems for Big Data Applications Cloud-based Scientific Data Management (VDSE S. Benkner, Research Group Scientific Computing, University of Vienna.
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