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eResearch and ECR’s What is eResearch A picture of eResearch Nationally Data and Creative Commons Code of Conduct – – Data Management Obligations – Haidi Beard Tropical Data Hub – Demonstration – Marianne Brown eResearch and HPRC Services – QCIF – Demonstration - David Beitey Q &A 1 This work by Haidi Beard, eResearch Centre, James Cook University is licensed under a Creative Commons Attribution 3.0 Australia License.Creative Commons Attribution 3.0 Australia License
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eResearch@JCU Supercomputing Unit (R&I, 1994) HPC Unit (ITR, 1997)HPRC Unit (ITR, 2001)eResearch (MPIT/ITR, 2005)eResearch (SoB, 2008)eResearch Centre (R&I, 2012)
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What is eResearch? … the use of information technology to –create, –analyse, –manipulate, –store, –Distribute, –Preserve, data that is created in the course of doing research... …the development and use ICT to allow groups of researchers to tackle problems with increasing scale, complexity - true interdisciplinary research… “The next generation of research breakthroughs will rely upon new ways of handling the immense amounts of data that are being produced by modern research methods and equipment, such as telescopes, particle accelerators, genome sequencers and biological imagers….” A Vision for Research, RCUK, December 2003.
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Sensor nets data compute… Models/ software/ workflows colleagues instruments eResearch: Australia eScience: UK & EU Cyberinfrastucture: US
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What do we do? Services National VC systems: AccessGrid, EVO etc Web Collaboration Tools: Plone/Spaces Virtual Machine Services: Custom services Data manipulation & visualisation HPC services and support (ITR) – https://secure.jcu.edu.au/confluence/display/Public/HPRC+Infrastructure+History Assistance with national programs Strategic Projects Tropical Data Hub Research Data Management Store (code compliant) NBN ‘stuff’ Research Projects SEMAT (Sensor Networks) Sensor data management and fusion
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New HPC at JCU 7 AMD Solution 32 Nodes >2TB Memory >850 cores 1PB Tape >150TB disk 2 large memory nodes 64GB 22 Windows nodes
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8 Networks c2006 AARNet 10Gbps backbone
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eResearch – some trends Research is increasingly data–intensive Open access to data and information Inter-disciplinary / new disciplines e.g. Astro-informatics New approaches require new skills (IT + statistics + domain) Collaborative: virtual communities / organisations Knowledge-rich infrastructures: development of ontologies Highly distributed resource utilisation – instruments, primary data, bibliographic collections
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ICT Changes Everything Post the industrial revolution a spike in population/urbanisation grew the volume of research conducted An avalanche of information resulted from an explosion in connectivity ( to each other and to computing and data systems) Huge amounts of date are nowgenerated from sensor deployments –but no single person can exploit it, and its growing Now, lets assume - “People are not getting smarter” –Hence the information domain properly understood by any researcher will grow to be a smaller and smaller % of the information and data available to them How to conduct research in an increasing state of relative ignorance? –From research by individual experts working in a knowledge poor environment to research by teams in a knowledge rich environment
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http://www.coolgeography.co.uk
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Australian eResearch Infrastructure 2007-2014 12 Australian eResearch Infrastructure supported by NCRIS and Super Science For Australian Research… Advancing “discovery” in a technology and information rich world Rhys Francis Executive Director The Australian eResearch Infrastructure Council
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Australian eResearch Infrastructure 2007-2014 13 eResearch and Research eResearch has provided a systemic contribution to Research enabling more effective research and entirely new research empowered by the prolonged and exponential development of ICT This will continue unabated for the next decade, providing research with Enhanced interaction and expanding collaborative possibilities Allowing larger research teams to attack more complex problems Scaled up data analysis for knowledge discovery Allowing relationships to be detected that might otherwise be undiscoverable Increased scale and sensitivity of instruments and sensing platforms Opening up new research and entirely new research fields Improved performance of numerical simulation and computational science Modeling phenomena otherwise un-researchable at speeds previously unrealizable Increased bandwidth allowing entirely new research capabilities to be built Connecting instruments, data resources and analysis tools as never before
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Australian eResearch Infrastructure 2007-2014 14 eResearch: What needs doing Historically, science and engineering have led the pursuit of competitive research advantages from ICT and have sometimes led the development of advancements in ICT Now, all research fields seek the advantages possible from data aggregations, improving analytics, real-time hi-res visualisation and simplified web services The objectives for eResearch infrastructure investment are becoming clearer a)Develop and deploy virtual environments to digitally enable research b)Improve the quality, functionality and accessibility of software based research tools c)Improve data management, description and access, for big problems with rich data d)Support national and global inter-operability to automate research workflows e)Grow data holdings to new scales, with analytics to accelerate data science f)Grow computing capabilities to open new frontiers for in-silico research g)Remove bandwidth barriers between researchers and research resources eResearch infrastructure also must increasingly operate on a 24x7 basis, support international security and accessibility frameworks, and include ‘consumer’ quality services and products Last, an increasing pool of skilled people will be needed across the system to support the adoption of new ICT capabilities and to support the continuing innovation of research methods
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Australian eResearch Infrastructure 2007-2014 15 eResearch Infrastructure circa 2006 APAC 14Tf/s AARNet 10Gbps backbone
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Australian eResearch Infrastructure 2007-2014 16 Current eResearch “Under Construction” Extended AREN $40M NBN Blackspots APAC 14Tf/s
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Australian eResearch Infrastructure 2007-2014 17 Current eResearch “Under Construction” HPC $130M Petascale Specialised VLSCI $100M NCI 200 Tf/s >1000Tf/s Pawsey 150 Tf/s >1000Tf/s Extended AREN $40M NBN Blackspots
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Australian eResearch Infrastructure 2007-2014 18 Current eResearch “Under Construction” ANDS $69M Offices Activities HPC $130M Petascale Specialised VLSCI $100M NCI 200 Tf/s >1000Tf/s Pawsey 150 Tf/s >1000Tf/s Extended AREN $40M NBN Blackspots
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Australian eResearch Infrastructure 2007-2014 19 Current eResearch “Under Construction” Tools $12M ARCS/ANDS Tools $12M eRCI ANDS $69M Offices Activities HPC $130M Petascale Specialised Still to be located: VLSCI $100M NCI 200 Tf/s >1000Tf/s Pawsey 150 Tf/s >1000Tf/s 10-15 more Extended AREN $40M NBN Blackspots
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Australian eResearch Infrastructure 2007-2014 20 Current eResearch “Under Construction” Tools $12M ARCS/ANDS Tools $12M eRCI Cloud systems $23M eRCI ANDS $69M Offices Activities HPC $130M Petascale Specialised Digital Labs $12M eRCI Still to be located: VLSCI $100M NCI 200 Tf/s >1000Tf/s Pawsey 150 Tf/s >1000Tf/s 1 or 2 more 10-15 more 5..10 Extended AREN $40M NBN Blackspots
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Australian eResearch Infrastructure 2007-2014 21 Current eResearch “Under Construction” Data Net Tools $12M ARCS/ANDS Tools $12M eRCI Cloud systems $23M eRCI 1 or 2 more 1..10 10-15 more ANDS $69M Offices Activities HPC $130M Petascale Specialised Digital Labs $12M eRCI Data Stores $50M RDSI 5..10 Still to be located: VLSCI $100M NCI 200 Tf/s >1000Tf/s Pawsey 150 Tf/s >1000Tf/s Extended AREN $40M NBN Blackspots
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Australian eResearch Infrastructure 2007-2014 22 eResearch Infrastructure Stack 2007-2014 Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods NCI, Pawsey + $156M AREN + $40M RDSI + $50M AAF + $2M ANDS (Inc. ASSDA) + $75M Problem Oriented Digital Laboratories Better research tools, environments and workflows AeRIC $1.5M NeCTAR (Inc. ARCS) + $69.5M
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Australian eResearch Infrastructure 2007-2014 23 eResearch Infrastructure Stack 2007-2014 Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods NCI&Pawsey + $156M AREN + $40M RDSI + $50M AAF + $2M ANDS (inc. ASSDA) + $75M Problem Oriented Digital Laboratories Better research tools, environments and workflows NeCTAR (inc. ARCS) + $69.5M National Capabilities + $246M Research Integration + $144.5M AeRIC $1.5M
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Australian eResearch Infrastructure 2007-2014 24 Tools example - Aus-e-Lit More data: Scholarly Electronic Text and Image Service Libraries Australia National Bibliographic Database Register of Australian Archives and Manuscripts Australian Dictionary of Biography Online Dictionary of Australian Artists Online Australian Digital Theses DB People Australia, Picture Australia PANDORA, AusStage More uses: compound object authoring, editing and publishing services collaborative annotation services data integration and search services empirical reporting services
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Australian eResearch Infrastructure 2007-2014 25 Data example: Spatial Information Service Stack bedrock surficial mineral geochemical geochronologic hyrdrogeological Geo-information geophysical One view: All geoscience data Served from all relevant institutions Same standards Common software stack An open standards based, earth science information infrastructure, installed nation wide serving ALL exploration data in Australia
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Australian eResearch Infrastructure 2007-2014 26 International example: Cyberinfrastructure Vision National Science Foundation (USA) - ISSUES HIGH PERFORMANCE COMPUTING What Does High Performance Computing Offer Science and Engineering? DATA, DATA ANALYSIS, AND VISUALIZATION A Wealth of Scientific Opportunities Afforded by Digital Data Developing a Coherent Data Cyberinfrastructure in a Complex Global Context VIRTUAL ORGANIZATIONS FOR DISTRIBUTED COMMUNITIES New Frontiers in Science and Engineering Through Networked Resources and Virtual Organizations LEARNING AND WORKFORCE DEVELOPMENT Cyberinfrastructure and Learning Building Capacity for Creation and Use of Cyberinfrastructure Using Cyberinfrastructure to Enhance Learning National Science Foundation (USA) - THE NEXT FIVE YEARS Creating a High Performance Computing Environment for Petascale Science and Engineering Towards a National Digital Data Framework Establishing a Flexible, Open Cyberinfrastructure Framework for Virtual Organizations Learning About and With Cyberinfrastructure
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Australian eResearch Infrastructure 2007-2014 27 NCRIS and Super Science eResearch Funding eResearch infrastructure capabilities a)Digitally enable research and research workflows b)Improve function/accessibility of software tools c)Improve data management and data description d)Grow data collections and data holdings e)Grow simulation/modelling capability f)Remove bandwidth barriers Two new peta-scale data centre buildings Improve infrastructure reliability/availability (within other activities) Provide training and support resources (out of scope due to fund sources) The figures are Commonwealth funding contributions Typically sector participants contribute equivalent levels of resources 2007-11 $18M $12M $21M $26M $3M TOTALS $80M 2010-14 $35M $12M $48M $50M $80M $37M $50M $312M
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Australian eResearch Infrastructure 2007-2014 28 Extend Bandwidth Remove bandwidth barriers between researchers and research resources The Australian Research and Education Network (AREN) Connects all Australian Universities and the CSIRO nationally and internationally through high performance global network connectivity Is provided by AARNet, with extensions provided by several regional network operators Requires ongoing enhancement and further development to reach all researchers and all organizations with researchers or with resources of interest to researchers Planned Improvements : Backbone upgrade from Adelaide to Perth Brisbane outer metropolitan network Dedicated data centre interconnection Sydney metropolitan network Sunshine backbone Tasmanian regional network Victorian HPC and medical research WAN W.A. capacity and connectivity projects Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 29 Better HPC Modeling Grow computing capabilities to open new frontiers for in-silico research National Computational Infrastructure (NCI) + peta-scale data centre facility Priority areas: Climate change, earth systems science and national water management research Participants: Commonwealth Gov, ANU, CSIRO, BoM, GA, Intersect, iVEC, Monash Uni, QCiF Located in Canberra – on the ANU campus Oversight by NCI Steering Committee – owned and managed by ANU Total budget 2009/13 $120M (est) Milestones 2011200 TF/s 2012New facility opened 2012> 1PF/s Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 30 Better HPC Modeling Grow computing capabilities to open new frontiers for in-silico research Pawsey Centre + peta-scale data centre facility Priority areas: Research in Astronomy, Geoscience and Nano-technology Participants: Commonwealth Gov, WA Gov, CSIRO, Curtin, ECU, Murdoch, UWA Located in Perth – at the Bentley Technology Park Managed through iVEC – owned by CSIRO Total budget 2009/14 $140M (est) Milestones 2010150 TF/s 2012New facility opened 2013> 1PF/s Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 31 Larger Data Collections Grow data holdings to new scales, with analytics to accelerate data science The Funding Agreement to establish the proposed Research Data Storage Infrastructure is expected to be concluded in October 2010. Arrangements are expected to be as follows: A governing committee will set out criteria that will need to be met by data service providers and by data collections for them to be supported by the RDSI The services of the RDSI will be developed within otherwise existing data centres and require suitable professional levels of technology and systems support The RDSI will support both storage, access and generic analysis services as requested by communities and agreed by the RDSI The RDSI will be a federation of nodes providing as uniform a user experience as is possible across what will be loosely coupled storage systems The governing committee will assign funding to support proposals for collections of research merit and is expected to significantly assist costs for those collections for 2010-2015 Support for a collection will nevertheless require participants to continue to meet operational costs, providing a natural brake on demand Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 32 The Australian Access Federation (AAF) provides a production framework and support infrastructure to facilitate trusted electronic communications and collaboration within and between universities and research institutions in Australia and overseas. The AAF is an incorporated association of its members intended to provide: sector wide authentication anonymous and identified authentication, at multiple levels of assurance single sign on to AAF capable resources agreements between parties related to privacy and use of information Currently 34 institutional members, 10 more in progress, 8 affiliates (31 Oz Unis/CSIRO). Service owners connecting to the AAF continue to control the access and use of their services. Shared Access Methods Support national and global inter-operability to enable research workflows Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 33 Research Data Commons Improve data management, description and access, for big problems with rich data ANDS Participants: –Commonwealth Gov, Monash Uni, ANU, CSIRO Governed by ANDS S/C –Monash is the prime contractor –Participants have back-to-back agreements with Monash Additional activity participants: –All research intensive Universities –NCRIS capabilities –Public sector data providers –eResearch organisations Offices at Monash and ANU –staff in participant facilities Institutions define projects More Australian researchers reusing research data more often… Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 34 Data Capture Metadata Stores Data Stores - National - Regional - Institutional ARDC Applications Public Sector Data ARDC Core Seeding the Commons Frameworks and Capabilities Install systems in Universities to harvest enterprise information for external data presentation Improve data and meta data capture from research instruments and other data collection platforms Provide core services, such as persistent identifiers, data publishing and data location services Develop apps and services that leverage the ARDC eg. linking data by who, what, when or where Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows Research Data Commons Improve data management, description and access, for big problems with rich data
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Australian eResearch Infrastructure 2007-2014 35 Digital Laboratories Develop and deploy virtual environments to digitally enable research The NeCTAR project, lead by the University of Melbourne, will: –Undertake further rounds of research tool development projects –Initiate the development of exemplar digitally enabled laboratories –Provide a virtual server support infrastructure –Develop ‘cloud’ application support infrastructures and connect it to RDSI services Research groups will be able to showcase 21st Century Discovery by combining these capabilities with high end resources at peta scale centres, enhanced collections through the RDSI and the Australian Research Data Commons supported by ANDS. ARCS (a joint venture of 8 partners including state representative eResearch service providers, the ANU and CSIRO) provided the build up towards this goal by: –Establishing an Australian National Grid and applications environment –Developing an operating a national wide data fabric including a national file system –Promoting and supporting collaboration systems, eg EVO and A/G systems –Managing existing rounds of Research Tools development projects ARCS is being wound down to be replaced by the NeCTAR and RDSI projects. Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows
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Australian eResearch Infrastructure 2007-2014 36 Research Tools: funded between $0.5M and $1M per project over 2 to 3 years ArtsAdelImprove capture, analysis and visualisation for complex rich data in the AusStage archive BiologyMelbAdd ontology based indexing to phenomics data collection and discovery BiologyPerthProvide workflow appliances that can support ‘cloud’ bio-science data analysis BioSecurityMelbProvide a digital collaboration platform for national emergency animal disease response Eco-SysCanbImprove data integration and annotation services for the Atlas of Living Australia Eco-SysMelbProvide workflow systems to support spatial ecosystem information analysis GeosciencePerthProvide OGC service software to support a unified national geosciences data commons HealthMelbProvide data collection tools to support the Australian node of the Human Variome Project HumanitiesBrisbAdd federated search and community oriented annotation capabilities to the AusLit portal ImagingSydProvide instrument identification and data management tools for the AMMRF (microscopy) ImagingMelbProvide tools to enable remote 3D tomography reconstruction and visualization MarineHobAdd OGC spatial data standards to OPeNDAP and automate ingest and metadata generation Soc-SciCanbAdd authorized search, analysis and web based visualization, ingest and access to ASSDA Soc-SciPerthAdd web accessibility to data and tools operating over criminal justice data holdings Infrastructure Co-ordination Research Data Commons Better data management, description and access Extended Bandwidth Better HPC modellingLarger data collections Shared Access Methods Problem Oriented Digital Laboratories Better research tools, environments and workflows Digital Laboratories Improve the quality, functionality and accessibility of software based research tools
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Data and CC http://www.slideshare.net/Jessicacoates/copy right-for-creative-collaboration?src=embed http://www.slideshare.net/Jessicacoates/copy right-for-creative-collaboration?src=embed 37
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Code of Conduct Data Management Obligations – Haidi Beard! 38
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Tropical Data Hub (TDH) A platform to support Tropical SKI.
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The Goal - Horizontal slice
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StC & DC Data Collection from known holders of significant and well referenced data sets – ACTFR, Reef and Rainforest tropical data collections at JCU, close gov. agencies: discovery and description. DC projects to capture data/meta- data and auto-ingest data – NCCARF, DRO, Wet Tropics World Heritage, ACTFR: Rich Data Capture (Sensor & Data bases)
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Applications TDH Portal (a lá PIC) Land Use Planning – Synthesis of data related to future tropical species distributions under different GCM’s and emission futures – Identification of biodiversity hotspots, refugia and connectivity's – Visualization, research, management and outreach applications
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Applications https://tropicalhub.hpc.jcu.edu.au/
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Wallace Initiative https://wwftest.hpc.jcu.edu.au/wallace/
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The Response The Tropical Data Hub (TDH) is an open platform for distributed data sharing and processing. To provide relevant information to facilitate knowledge transfers between researchers, managers, policy-makers and the general public.
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The System
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TDHDemonstration Marianne Brown! 47
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JCU briefing August 2011 ENABLING eRESEARCH FOR QUEENSLAND 22Aug2010QCIF - JCU48
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Impact of Advanced eResearch e-Research has the potential to produce significant economic benefits in such areas as agriculture, environment, health, security, finance, biotechnology, water resources management, mining and manufacturing; eResearch Coordinating Committee 2005 Advances in computational technology continue to transform … research, practice, and allied education. Recently, multiple accelerating trends are converging and crossing thresholds in ways that show extraordinary promise for an even more profound and rapid transformation; National Science Foundation 2003 UK investments had demonstrated that innovation, design, resource management and decision support could be revolutionised in the full design-to-delivery product life cycle. The impacts are already being felt in three important areas: life sciences and medicine, materials, and energy and sustainability; UK e-Science Review 2009 QCIF - JCU49
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QCIF - JCU 50 Associate : ► Queensland’s regional eResearch service enabler ► Established in 2000 as not-for-profit company ► Owned by 6 Queensland universities Queensland Cyber Infrastructure Foundation
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QCIF’s Mission – Enabling eResearch 22Aug2010QCIF - JCU51 NCRIS Queensland Government Universities Industry and government users Influence, Interaction, Collaboration Investments HPC infrastructure eResearch services Outreach Skills development Universities Research Government Industry Invests in Stimulates Enables Promotes
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Training Facilitating collaboration Impacts of QCIF’s Activities 22Aug2010QCIF - JCU52 HPC infrastructure eResearch Capability eResearch Capability Applications Tools, Data Research Industry HPC Data storage User Support Uptake Expertise
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HPC and Data Storage Access Infrastructure 22Aug2010QCIF - JCU53 Tier 1 National Facility Power Users Major Collections Tier 2 Regional Facility High Performance Users Massive Databases Tier 3 Institutional Facility Faculty Users Data Caches, Management 2010: >100 Tflops >100 Pbytes > 10 Tflops > 10 Pbytes > 1 Tflops > 1 Pbyte Tier 4 Clouds Long Tail
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Advanced IT Infrastructure Planned evolution – access to all researchers Integration statewide and with national facilities High-performance technology refresh cycle QCIF - JCU54 QCIF members Government and other research Industry
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Accelerating Uptake and Access … 22Aug2010QCIF - JCU55 TechnologistsEarly Adopters Late Majority Late Adopters Member ITR(S) Member eResearc h National eResearch National eResearch QCIF User Support Awareness Training Expertise Leadership User Support Awareness Training Expertise Leadership Early Majority
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National Collaboration Channelling Services QCIF - JCU56 ARCS Evo, Data Fabric, Compute Cloud ANDS Data commons, capture NeCTaR New collaboration services NCI Tier1 HPC (QCIF share) NRDSI Tier 1 Data storage Regional eResearch Enablers Specialised tools (eg GDA)
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eResearch Capability Development eResearch-capable people for industry Plan for capacity development and programs Early training program Expertise - computation, data mining & management QCIF - JCU57 AreaTargetActivity AwarenessGeneral community Research groups seminars, visitors, case studies, demonstrations EducationUndergraduate students Postgraduate students internships, visits, achievement awards projects, assignments TrainingIT Specialists eResearch support Research groups courses, workshops, schools, forums
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Applications, Tools, Projects Innovation ProjectsFocus AreaLeadership Super Science Initiatives Mining & exploration Sustainability, environment National Transitioning Research to Industry Application Mining, tropical industries, energy, water, health, transport, environment State Platforms for Advanced Research Bioinformatics, ecoinformatics, social science, data management etc Institution QCIF - JCU58
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Commercial- grade Prototypes Transitioning Research to Application QCIF - JCU59 Pilots for Application Research Researcher s Application expertise Project management, engineering, HPC, data expertise transition know-how Project management, engineering, HPC, data expertise transition know-how
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Outreach Projects Technology Diffusion Member + SME HPC or eResearch application pilot QCIF invests up to $50K Co-investments High value impacts on industry partner Strategic Initiatives Member + industry/govt Complex, challenging application area Investment up to $250K Co-investments High value impact Tropical Data Hub at JCU QCIF - JCU60
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QCIF and JCU With JCU eResearch, ITR and the IS Accelerate application of eResearch Channel for ANDS, ARCS services High-performance infrastructure Promote research collaborations Stimulate government and industry apps QCIF - JCU61
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eResearch Services at JCU David Beitey! 62
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